Nctc1 Gene Detail

Summary

• Symbol
  Nctc1
• Name
  non-coding transcript 1
• Synonyms
  Rhit1

• Feature Type
  lncRNA gene
• IDs
  MGI:1306816
  NCBI Gene: 330677
• Alliance
  gene page
• Transcription Start Sites
  2 TSS

Location &
Maps

• Sequence Map
  Chr7:142098346-142112335 bp, - strand

  From NCBI annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 7, 87.96 cM
• Mapping Data
  5 experiments

Strain
Comparison

• SNPs within 2kb
  257 from dbSNP Build 142
• Strain Annotations
  18
• PCR
  1

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1306816	lncRNA gene	Chr7:142098346-142112337 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0015702	unclassified non-coding RNA gene	Chr7:147804481-147819440 (-)
A/J	MGP_AJ_G0015680	unclassified non-coding RNA gene	Chr7:143538887-143553649 (-)
AKR/J	MGP_AKRJ_G0015643	unclassified non-coding RNA gene	Chr7:147565018-147579040 (-)
BALB/cJ	MGP_BALBcJ_G0015641	unclassified non-coding RNA gene	Chr7:143309315-143323295 (-)
C3H/HeJ	MGP_C3HHeJ_G0015463	unclassified non-coding RNA gene	Chr7:147327153-147342073 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0016096	unclassified non-coding RNA gene	Chr7:153145908-153161705 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0013825	unclassified non-coding RNA gene	Chr7:144745883-144759861 (-)
CAST/EiJ	MGP_CASTEiJ_G0015018	unclassified non-coding RNA gene	Chr7:139636352-139651969 (-)
CBA/J	MGP_CBAJ_G0015444	unclassified non-coding RNA gene	Chr7:158395703-158412252 (-)
DBA/2J	MGP_DBA2J_G0015540	unclassified non-coding RNA gene	Chr7:141490290-141504314 (-)
FVB/NJ	MGP_FVBNJ_G0015546	unclassified non-coding RNA gene	Chr7:141425445-141442129 (-)
LP/J	MGP_LPJ_G0015620	unclassified non-coding RNA gene	Chr7:149314572-149328563 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0015568	unclassified non-coding RNA gene	Chr7:159011567-159026815 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0016138	unclassified non-coding RNA gene	Chr7:146514047-146528808 (-)
PWK/PhJ	MGP_PWKPhJ_G0014800	unclassified non-coding RNA gene	Chr7:134818189-134832290 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0014589	unclassified non-coding RNA gene	Chr7:133313253-133327213 (-)
WSB/EiJ	MGP_WSBEiJ_G0015123	unclassified non-coding RNA gene	Chr7:147496047-147510856 (-)

Homology

• Gene Tree
  Nctc1
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  1 phenotype from 1 allele in 1 genetic background
  6 phenotype references
  

• All Mutations and Alleles
  4
• Endonuclease-mediated
  2
• Radiation induced
  1
• Targeted
  1
• Genomic Mutations
  1 involving Nctc1
• Find Mice (IMSR)
  4 strains or lines available

Expression

• Assay Results
  722
• Tissues
  12
• cDNA Data
  7
• Literature Summary
  1

Tissue x Stage Matrix

• Other Mouse Links
  Allen Institute
  GEO
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  28
• RefSeq
  1

• Ensembl
  ENSMUSG00000087090 (Evidence)
• NCBI Gene
  330677

Representative Sequences			Length	Strain/Species
genomic	330677	NCBI Gene Model | MGI Sequence Detail	13990	C57BL/6J
transcript	NR_002452	RefSeq | MGI Sequence Detail	2106	ZRU/MplStud

Molecular
Reagents

• All nucleic 10

  Genomic 2

  cDNA 7

  Primer pair 1

References

• Summaries
  All 20

  Developmental Gene Expression 1

  Phenotypes 6
• Earliest
  J:43998 Zubair M, et al., Structure and expression of the mouse L23mrp gene downstream of the imprinted H19 gene: biallelic expression and lack of interaction with the H19 enhancers. Genomics. 1997 Oct 15;45(2):290-6
• Latest
  J:326541 Cyagen Biosciences Inc., Cyagen Biosciences Website. 2022;

TSS for Nctc1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr75812	Chr7:142112327-142112342 (-)	0 bp
Tssr2459	Chr7:142112318-142112321 (-)	15 bp