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Rat connectome



Intermediate reticular nucleus left


Abbreviation
IRt
Color       
Superior regionsReticular system

SynonymsAbbr.Language
Intermediate reticular field  
Intermediate reticular formation  
Intermediate reticular area Eng
Intermediate part Eng
Intermediate reticular nucleusIRtEng
Caudal pons dorsal to the facial nucleus Eng
Nucleus reticularis intermedialis Eng
Intermediate reticular zone Eng
Intermediate medullary reticular formation Eng
Intermediate division of the reticular formation Eng
Medullary intermediate reticular region Eng

SubregionsSide
Intermediate reticular nucleus alpha partleft
Intermediate reticular nucleus dorsomedial partleft
Intermediate reticular nucleus ventrolateral partleft
Dorsal intermediate reticular nucleusleft
Ventral intermediate reticular fieldleft
Paraambigual region of the intermediate reticular zoneleft
Intermediate reticular zone A1left
Intermediate reticular zone C1left
Intermediate reticular nucleus medullary viszeral zoneleft
Caudal medullary intermediate reticular regionleft

Output to

NameSideAbbr.WeightDetails
Superior colliculusipsiSC1
Central gray of the superior colliculusipsicgSC1
Superior colliculus medial partipsimSC1
Superior colliculus rostral partipsirSC1
Superior colliculus rostrocaudal partipsiSCrc1
Paramedian lobuleipsiPM3
C1-forelimb zoneipsiC1FZO3
Simple lobuleipsiSim3
A5 noradrenaline cellsipsiA54
Intermediate reticular nucleusipsiIRt4
Paramedian reticular nucleusipsiPMn2
Rostroventrolateral reticular nucleusipsiRVL2
Pontine reticular nucleusipsiPRN-0.5
Lateral parabrachial nucleus internal partipsiLPBI1
Gigantocellular reticular nucleusipsiGi2
Lateral reticular nucleusipsiLRt1
Medullary reticular nucleusipsiMdD1
Medullary reticular nucleus dorsal partipsiMdDd3
Medullary reticular nucleus ventral partipsiMdV1
Ventral medullary reticular formationipsiVMurF3
Parvicellular reticular nucleusipsiPCRt3
Ambiguus nucleusipsiAmb3
Ambiguus nucleus compact partipsiAmbC1
Ambiguus nucleus loose partipsiAmbL1
Ambiguus nucleus semicompact formationipsiAmbSeC1
Area postremaipsiAP0.5
Medullary viszeral zoneipsiAPmvz1
Facial nucleusipsi73
Hypoglossal nucleusipsi12S4
Hypoglossal motor nucleusipsi12M-0.5
Midline part of the hypoglossal nucleusipsi12SMM-0.5
Hypoglossal nucleus rostral partipsi12Sr-0.5
Caudal part of the hypoglossal nucleusipsi12SC-0.5
Intertrigeminal nucleusipsiI5-0.5
Juxtatrigeminal areaipsiJx5-0.5
Supratrigeminal nucleusipsiSu5-0.5
Trigeminal nucleusipsi5-0.5
Motor trigeminal nucleusipsiMo53
Principal sensory trigeminal nucleusipsiPr50.5
Medial vestibular nucleusipsiMVe0
Nucleus of the solitary tractipsiSol3
Nucleus of the solitary tract commissural partipsiSolC1
Nucleus of the solitary tract intermediate partipsiSolIM-0.5
Parasolitary nucleusipsiPSol-0.5
Dorsal motor nucleus of vagusipsi100.5
Raphe magnus nucleusipsiRMg2
Caudal ventrolateral medullaipsiCVLM-0.5
Caudalmost ventrolateral medullaipsiCmVLM1
Rostral ventrolateral medullaipsiRVLM1
Gracile nucleus principal partipsiGr-0.5
Paragigantocellular reticular nucleusipsiPGi1
Lateral paragigantocellular nucleusipsiLPGi1.5
Retrotrapezoid nucleusipsiRTN3
Inferior salivatory nucleusipsiIS4
Superior salivatory nucleusipsiSuS4
Choroidea innervating part of the superior salivatory nucleusipsiCSSN-0.5
Caudal ventral medulla oblongataipsiCVMeO-0.5
Medulla oblongata rostroventralipsiMeObRV-0.5
Dorsomedial nucleus posterior partipsiDMHp1
Posterior hypothalamic nucleusipsiPH1
Paraventricular hypothalamic nucleusipsiPa1
Suprachiasmatic nucleusipsiSCh2
Supraoptic nucleus [Supraoptic region]ipsiSO1
Anteroventral thalamic nucleusipsiAV0
Central medial thalamic nucleusipsiCM1
Centrolateral thalamic nucleusipsiCL0
Paracentral thalamic nucleus caudal partipsiPC-c1
Paracentral thalamic nucleus rostral partipsiPC-r1
Parafascicular thalamic nucleus lateral partipsiPFL3
Parafascicular thalamic nucleus medial partipsiPFM2
Rhomboid thalamic nucleusipsiRh1
Posterior thalamic nuclear group dorsocaudal partipsiPoDC1
Mediodorsal thalamic nucleusipsiMD0
Intermediodorsal thalamic nucleusipsiIMD0
Mediodorsal thalamic nucleus central partipsiMDC2
Mediodorsal thalamic nucleus lateral partipsiMDL2
Mediodorsal thalamic nucleus medial partipsiMDM2
Submedius thalamic nucleusipsiSub0
Paratenial thalamic nucleusipsiPT0
Paraventricular thalamic nucleus anterior partipsiPVA1
Paraventricular thalamic nucleus medial partipsiPVM0
Paraventricular thalamic nucleus posterior partipsiPVP0
Reuniens thalamic nucleusipsiRe1
Ventral posterior thalamic nucleus parvicellular partipsiVPPC1
Ventral posterolateral thalamic nucleus posterior partipsiVPLP1
Medial part of ventral posteromedial thalamic nucleusipsiVPMm1
Ventromedial thalamic nucleus caudal partipsiVMc1
Oval paracentral thalamic nucleusipsiOPC3
Reticular thalamic nucleus lateral partipsiRtL1
HabenulaipsiHAB-0.5
Bed nucleus of the stria terminalisipsiBST-0.5
Central amygdaloid nucleusipsiCe-1
Subthalamic nucleusipsiSTh1
Ventrolateral funiculusipsivLF0.5
Cervical segment 1ipsiCS13
Phrenic motoneurons of lamina 9 C3ipsiPh9C3-0.5
Spinal cord layers C4ipsiSCLC4-1
Ventral horn C4ipsiVHC41
Phrenic motoneurons of lamina 9 C4ipsiPh9C4-0.5
Cervical segment 5ipsiCS50.5
Ventral horn C5ipsiVHC50.5
Phrenic motoneurons of lamina 9 C5ipsiPh9C5-0.5
Cervical segment 7ipsiCS7-1
Spinal cord layers L1ipsiSCLL1-0.5
Lumbar segment 2ipsiL20.5
Spinal cord layers L2ipsiSCLL2-0.5
Ventral horn L2ipsiVHL20.5
Medial longitudinal fasciculuscontramlf-0.5
Medial paralemniscal nucleuscontraMPL1
Superior colliculuscontraSC2
Central gray of the superior colliculuscontracgSC1.5
Superior colliculus medial partcontramSC1.5
Superior colliculus rostral partcontrarSC1.5
Superior colliculus rostrocaudal partcontraSCrc1.5
Paramedian lobulecontraPM1
C1-forelimb zonecontraC1FZO1
Simple lobulecontraSim1
A5 noradrenaline cellscontraA52
Intermediate reticular nucleuscontraIRt2
Paramedian reticular nucleuscontraPMn1
Rostroventrolateral reticular nucleuscontraRVL0
Pontine reticular nucleuscontraPRN-0.5
Gigantocellular reticular nucleuscontraGi1
Lateral reticular nucleuscontraLRt0
Medullary reticular nucleus dorsal partcontraMdDd2
Medullary reticular nucleus ventral partcontraMdV0
Ventral medullary reticular formationcontraVMurF2
Parvicellular reticular nucleuscontraPCRt3
Ambiguus nucleuscontraAmb3
Area postremacontraAP0
Facial nucleuscontra73
Hypoglossal nucleuscontra12S4
Hypoglossal motor nucleuscontra12M-0.5
Midline part of the hypoglossal nucleuscontra12SMM-0.5
Hypoglossal nucleus rostral partcontra12Sr-0.5
Caudal part of the hypoglossal nucleuscontra12SC-0.5
Intertrigeminal nucleuscontraI5-0.5
Juxtatrigeminal areacontraJx5-0.5
Supratrigeminal nucleuscontraSu5-0.5
Trigeminal nucleuscontra5-0.5
Motor trigeminal nucleuscontraMo53
Principal sensory trigeminal nucleuscontraPr50
Medial vestibular nucleuscontraMVe0
Nucleus of the solitary tractcontraSol-0.5
Nucleus of the solitary tract commissural partcontraSolC1
Nucleus of the solitary tract intermediate partcontraSolIM-0.5
Parasolitary nucleuscontraPSol-0.5
Dorsal motor nucleus of vaguscontra100
Rostral ventrolateral medullacontraRVLM1
Gracile nucleus principal partcontraGr-0.5
Paragigantocellular reticular nucleuscontraPGi-0.5
Lateral paragigantocellular nucleuscontraLPGi1.5
Inferior salivatory nucleuscontraIS3
Superior salivatory nucleuscontraSuS3
Choroidea innervating part of the superior salivatory nucleuscontraCSSN-10
Dorsomedial nucleus posterior partcontraDMHp3
Posterior hypothalamic nucleuscontraPH1
Posterior thalamic nuclear group dorsocaudal partcontraPoDC1
Mediodorsal thalamic nucleus central partcontraMDC1
Mediodorsal thalamic nucleus lateral partcontraMDL1
Mediodorsal thalamic nucleus medial partcontraMDM1
Ventral posterolateral thalamic nucleus posterior partcontraVPLP1
Medial part of ventral posteromedial thalamic nucleuscontraVPMm1
Reticular thalamic nucleus lateral partcontraRtL1
Ventrolateral funiculuscontravLF-2
Cervical segment 1contraCS12
Ventral horn C4contraVHC41
Cervical segment 5contraCS50.5
Spinal cord layer 4 C5contraSCL4C50.5
Ventral horn C5contraVHC50.5
Cervical segment 7contraCS7-1
Spinal cord layer 4 C7contraSCL4C70.5
Spinal cord layers L1contraSCLL1-0.5
Lumbar segment 2contraL20.5
Spinal cord layers L2contraSCLL2-0.5
Ventral horn L2contraVHL20.5
Sinoatrial nodeipsiSinoAtri1
Superior cervical ganglionipsiAutoSCeG3
Sinuatrial nodeipsiAutoCaGSin3
Vagus nerveipsiAutoV-0.5
Sympathetic nervous systemipsiSNS1
Parasympathetic nervous systemipsiPaNS1
Sciatic nerveipsisci2
Intraatrial septum areaipsiOrgsArtrSep3
PericardiumipsiOrgsPeric1
Intrinsic lingual musculatureipsiOrgOCTmusci-10
Submandibular glandipsiOrgsSubg-10
Choroid blood vessels of the eyeipsiOrgChorBV-10
DiaphragmaipsiMuscDia-10
Genioglossus muscleipsiMuscGenioG-0.5
Lumbar epaxial musclesipsiMuscLep-0.5
Musculus masseteripsiMuscMass-0.5
Inferior pharyngeal constrictor muscleipsiMusciPC-0.5
Posterior cricoarytenoid muscleipsiMuscPCA-0.5
Thyroarytenoid muscleipsiMuscTAr-0.5
Styloglossus muscle systemipsiMuscStyG-10
Musculus abductor caudae dorsalisipsiMuscAbdCaDo-10
Submandibular glandcontraOrgsSubg-10
Genioglossus musclecontraMuscGenioG-0.5
Pancreas sideipsiOrgsPancs2

Input from

NameSideAbbr.WeightDetails
Periaqueductal grayipsiPAG2
Ventrolateral periaqueductal grayipsiVLPAG3
Superior colliculus superficial layersipsiSCs0.5
Superior colliculus intermediate layersipsiSCi2
Superior colliculus deep layersipsiSCd0
Substantia nigra A9ipsiSN1
Substantia nigra lateral partipsiSNL-0.5
Substantia nigra reticular partipsiSNR3
Ventral tegmental area A10ipsiVTA2
Pedunculopontine tegmental nucleusipsiPPTg1
Edinger Westphal nucleusipsiEW1
Deep cerebellar nucleiipsiDNC0.5
Prepositus nucleusipsiPr2
Intermediate reticular nucleusipsiIRt4
Paramedian reticular nucleusipsiPMn0
Rostroventrolateral reticular nucleusipsiRVL1
Central medial parabrachial nucleus waistipsiCMPBw1
Lateral parabrachial nucleus external partipsiLPBE1
Lateral parabrachial nucleus ventral partipsiLPBV2
Medial parabrachial nucleus external partipsiMPBE1
Gigantocellular reticular nucleusipsiGi2
Lateral reticular nucleusipsiLRt1
Medullary reticular nucleusipsiMdD0.5
Medullary reticular nucleus dorsal partipsiMdDd4
Medullary reticular nucleus lateral partipsiMdL-0.5
Medullary reticular nucleus ventral partipsiMdV0
Ventral medullary reticular formationipsiVMurF2
Parvicellular reticular nucleusipsiPCRt3
Subcoeruleus nucleus dorsal partipsiSubCD2
Ambiguus nucleusipsiAmb1
Area postremaipsiAP0
Facial nucleusipsi70
Hypoglossal nucleusipsi12S0.5
Principal hypoglossal nucleusipsi12Sprin0.5
Paratrigeminal nucleusipsiPa53
Mesencephalic trigeminal nucleus caudal poleipsiMe5cp1
Principal sensory trigeminal nucleusipsiPr51
Principal sensory trigeminal nucleus dorsal partipsiPr5D1
Principal sensory trigeminal nucleus intermediate partipsiPr5i0.5
Principal sensory trigeminal nucleus ventral partipsiPr5v0.5
Spinal trigeminal nucleus caudal partipsiSp5C2
Intermediate part of the spinal trigeminal nucleus caudal partipsiSp5Ci1
Spinal trigeminal nucleus caudal part dorsal divisionipsiSp5Cd2
Spinal trigeminal nucleus caudal part ventral partipsiSp5CV2
Spinal trigeminal nucleus interpolar partipsiSp5I1
Spinal trigeminal nucleus interpolar part dorsal partipsiSp5ID2
Spinal trigeminal nucleus interpolar part intermediate partipsiSp5Iim0.5
Spinal trigeminal nucleus interpolar part ventral partipsiSp5IV0.5
Spinal trigeminal nucleus oral partipsiSp5O0.5
Dorsal part of spinal trigeminal nucleus oral partipsiSp5OD0
Intermediate part of the spinal trigeminal nucleus oral partipsiSp5Oi1
Ventral part of spinal trigeminal nucleus oral partipsiSp5OV1
Trigeminal subnucleus caudalisipsi5SSC-0.5
Spinal vestibular nucleusipsiSpVe2
Vestibular nucleiipsiVnc2
Superior vestibular nucleusipsiSuVe-0.5
Medial vestibular nucleusipsiMVe0.5
Medial vestibular nucleus parvicellular partipsiMVePC2
Lateral vestibular nucleusipsiLVe1
Nucleus of the solitary tractipsiSol3
Nucleus of the solitary tract central partipsiSolCe-0.5
Rostral central part of the nucleus of the solitary tractipsiSolRCe1
Nucleus of the solitary tract medial partipsiSolM1
Nucleus of the solitary tract rostral partipsiSolro2
Medial part of rostral portion of the nucleus of the solitary tractipsiSolroM0.5
Ventral part of the rostral nucleus of the solitary tractipsiSolroV2
Nucleus of the solitary tract rostrolateral partipsiSolRL1
Nucleus of the solitary tract rapidly adapting pulmonary stretch receptor second order neuronsipsiRAR-0.5
Nucleus of the solitary tract rostrocentralipsiSolroc-2
Dorsal motor nucleus of vagusipsi100
Rostral linear nucleus of the rapheipsiRLi1
Rostral level of the caudal ventrolateral medullaipsiCVLMR-2
Lateral paragigantocellular nucleusipsiLPGi0.5
Retrotrapezoid nucleusipsiRTN3
Rostral ventral respiratory groupipsiRVRG-2
Medial preoptic areaipsiMPA1
Dorsomedial hypothalamic nucleusipsiDMHy0
Perifornical hypothalamic area [Preoptic anterior region]ipsiPFxPAR2
Lateral hypothalamic areaipsiLH2
Lateral hypothalamic area dorsal partipsiLHd1
Lateral hypothalamic area perifornical partipsiPFx3
Lateral hypothalamic area ventral partipsiLHAvp2
Lateral hypothalamic area [Lateral zone mammillary level]ipsiLHLZM-0.5
Posterolateral hypothalamusipsiPLHY1
Dorsomedial hypothalamic nucleus [Medial zone]ipsiDM2
Dorsomedial hypothalamic nucleus dorsomedial partipsiDMDM2
Posterior hypothalamic areaipsiPHA2
Ventromedial hypothalamic nucleusipsiVMH2
Periventricular zoneipsiPVZ1
Paraventricular hypothalamic nucleusipsiPa2
A8 dopamine cells retrorubral groupipsiRRF-0.5
Medial part of the caudal perifornical areaipsiPeFCM1
Lateral part of the caudal perifornical areaipsiPeFCL1
Central amygdaloid nucleusipsiCe3
Central amygdaloid nucleus lateral divisionipsiCeL2
Central amygdaloid nucleus medial divisionipsiCeM2
Interstitial nucleus of the posterior limb of the anterior commissure medial partipsiIPACM1
Subthalamic nucleusipsiSTh1
Lateral entorhinal cortexipsiLEnt-0.5
Lateral agranular prefrontal cortexipsiAGl1
Whiskers motor cortexipsiWMCx-0.5
Whisker motor cortex A1ipsiWMCxA13
Medial agranular prefrontal cortexipsiAGm1
Ventrolateral periaqueductal graycontraVLPAG1
Superior colliculuscontraSC2
Superior colliculus superficial layerscontraSCs1
Superior colliculus intermediate layerscontraSCi0
Superior colliculus deep layerscontraSCd0
Substantia nigra reticular partcontraSNR1
Ventral tegmental area A10contraVTA2
Prepositus nucleuscontraPr2
Intermediate reticular nucleuscontraIRt2
Paramedian reticular nucleuscontraPMn0
Rostroventrolateral reticular nucleuscontraRVL0.5
Gigantocellular reticular nucleuscontraGi1
Lateral reticular nucleuscontraLRt0
Medullary reticular nucleus dorsal partcontraMdDd3
Medullary reticular nucleus ventral partcontraMdV0
Ventral medullary reticular formationcontraVMurF1
Parvicellular reticular nucleuscontraPCRt2
Ambiguus nucleuscontraAmb0
Area postremacontraAP0
Facial nucleuscontra70
Hypoglossal nucleuscontra12S0
Principal sensory trigeminal nucleuscontraPr50.5
Principal sensory trigeminal nucleus dorsal partcontraPr5D0.5
Principal sensory trigeminal nucleus intermediate partcontraPr5i0.5
Principal sensory trigeminal nucleus ventral partcontraPr5v0.5
Spinal trigeminal nucleus caudal partcontraSp5C1
Intermediate part of the spinal trigeminal nucleus caudal partcontraSp5Ci0.5
Spinal trigeminal nucleus caudal part dorsal divisioncontraSp5Cd1
Spinal trigeminal nucleus caudal part ventral partcontraSp5CV1
Spinal trigeminal nucleus interpolar partcontraSp5I0.5
Spinal trigeminal nucleus interpolar part dorsal partcontraSp5ID1
Spinal trigeminal nucleus interpolar part intermediate partcontraSp5Iim0.5
Spinal trigeminal nucleus interpolar part ventral partcontraSp5IV0.5
Spinal trigeminal nucleus oral partcontraSp5O0.5
Dorsal part of spinal trigeminal nucleus oral partcontraSp5OD0
Intermediate part of the spinal trigeminal nucleus oral partcontraSp5Oi0.5
Ventral part of spinal trigeminal nucleus oral partcontraSp5OV0.5
Spinal vestibular nucleuscontraSpVe3
Vestibular nucleicontraVnc2
Medial vestibular nucleuscontraMVe0
Medial vestibular nucleus parvicellular partcontraMVePC2
Nucleus of the solitary tractcontraSol1
Nucleus of the solitary tract rostral partcontraSolro2
Dorsal motor nucleus of vaguscontra100
Lateral paragigantocellular nucleuscontraLPGi0
Retrotrapezoid nucleuscontraRTN1
Dorsomedial hypothalamic nucleuscontraDMHy0
Perifornical hypothalamic area [Preoptic anterior region]contraPFxPAR-0.5
Lateral hypothalamic area dorsal partcontraLHd-0.5
Lateral hypothalamic area ventral partcontraLHAvp-0.5
Posterolateral hypothalamuscontraPLHY-0.5
Dorsomedial hypothalamic nucleus [Medial zone]contraDM-0.5
Periventricular zonecontraPVZ-0.5
Paraventricular hypothalamic nucleuscontraPa0
Medial part of the caudal perifornical areacontraPeFCM-0.5
Lateral part of the caudal perifornical areacontraPeFCL-0.5
Central amygdaloid nucleuscontraCe1
Central amygdaloid nucleus lateral divisioncontraCeL1
Central amygdaloid nucleus medial divisioncontraCeM1
Whisker motor cortex A1contraWMCxA13
Jaw muscle spindlesipsiMuscJawS-0.5
Trachea sideipsiOrgsTras4

Key for weights

ValueWeight
-3 unknown
-2 fibers of passage
-1 not clear
-0.5 exists
0 not present
0.5 very light
1 light / sparse
1.5 light / moderate
2 moderate / dense
2.5 moderate / strong
3 strong
4 very strong





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