Rtcb MGI Mouse Gene Detail - MGI:106379 - RNA 2',3'-cyclic phosphate and 5'-OH ligase

Symbol

Rtcb
Name

RNA 2',3'-cyclic phosphate and 5'-OH ligase
Synonyms

D10Wsu52e, HSPC117

Feature Type

protein coding gene
IDs

MGI:106379
NCBI Gene: 28088
Alliance

gene page
Transcription Start Sites

2 TSS

Sequence Map

Chr10:85774501-85793657 bp, - strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 10, 41.81 cM
Mapping Data

4 experiments

SNPs within 2kb

553 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_106379	protein coding gene	Chr10:85774501-85793687 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0017605	protein coding gene	Chr10:86878886-86900655 (-)
A/J	MGP_AJ_G0017585	protein coding gene	Chr10:83987452-84007973 (-)
AKR/J	MGP_AKRJ_G0017545	protein coding gene	Chr10:86335816-86361876 (-)
BALB/cJ	MGP_BALBcJ_G0017548	protein coding gene	Chr10:84215511-84235243 (-)
C3H/HeJ	MGP_C3HHeJ_G0017371	protein coding gene	Chr10:86368233-86387124 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0018005	protein coding gene	Chr10:89836527-89860259 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0015689	protein coding gene	Chr10:79814321-79835570 (-)
CAST/EiJ	MGP_CASTEiJ_G0016937	protein coding gene	Chr10:86225514-86245108 (-)
CBA/J	MGP_CBAJ_G0017340	protein coding gene	Chr10:93546638-93568661 (-)
DBA/2J	MGP_DBA2J_G0017447	protein coding gene	Chr10:83100426-83120523 (-)
FVB/NJ	MGP_FVBNJ_G0017440	protein coding gene	Chr10:82368311-82387145 (-)
LP/J	MGP_LPJ_G0017519	protein coding gene	Chr10:87559512-87578405 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0017468	protein coding gene	Chr10:95185863-95207620 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0018042	protein coding gene	Chr10:86212131-86231570 (-)
PWK/PhJ	MGP_PWKPhJ_G0016718	protein coding gene	Chr10:83104898-83123692 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0016507	protein coding gene	Chr10:84857583-84876223 (-)
WSB/EiJ	MGP_WSBEiJ_G0016995	protein coding gene	Chr10:86172235-86191053 (-)

Human Ortholog

RTCB, RNA 2',3'-cyclic phosphate and 5'-OH ligase

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

RTCB, RNA 2',3'-cyclic phosphate and 5'-OH ligase
Synonyms

C22orf28, DJ149A16.6, FAAP, HSPC117
Links

HGNC:26935

NCBI Gene ID: 51493

neXtProt AC: NX_Q9Y3I0

UniProt: Q9Y3I0
Chr Location

22q12.3; chr22:32387582-32412248 (-) GRCh38

MGI Vertebrate Homology

Rtcb stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: RTCB
Gene Tree

Rtcb

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Phenotype Summary

9 phenotypes from 2 alleles in 2 genetic backgrounds
9 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

7
Chemically induced (other)

1
Targeted

6
Genomic Mutations

1 involving Rtcb
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

25 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice lacking expression in B cells show impaired immunoglobin secretion.

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All GO Annotations

26
GO References

7

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

759
Tissues

22
cDNA Data

241
Literature Summary

4

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase rtcb

ZFIN rtcb

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All Sequences

59
RefSeq

2
UniProt

2
CCDS

CCDS24094.1

Ensembl

ENSMUSG00000001783 (Evidence)
NCBI Gene

28088

			Length	Strain/Species	Flank
genomic	28088	NCBI Gene Model \| MGI Sequence Detail	19157	C57BL/6J	± kb
transcript	NM_145422	RefSeq \| MGI Sequence Detail	1979	ZRU/MplStud
polypeptide	Q99LF4	UniProt \| EBI \| MGI Sequence Detail	505	Not Applicable

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UniProt

2 Sequences
Protein Ontology

PR:000023892 RNA-splicing ligase RtcB

(term hierarchy)
EC

6.5.1.8
InterPro Domains

IPR001233 RNA-splicing ligase, RtcB

IPR027513 RNA-splicing ligase RtcB homologue, eukaryotic

IPR036025 tRNA-splicing ligase RtcB-like superfamily
GlyGen

Q99LF4 1 site, 1 O-linked glycan (1 site)

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All nucleic 244

cDNA 241

Primer pair 3

Microarray probesets 4

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MGD-MRK-34072, MGI:2143544, MGI:2143620

Summaries

All 39

Developmental Gene Expression 4

Gene Ontology 7

Phenotypes 9
Earliest

J:137335 Roderick TH, Chromosomal inversions in studies of mammalian mutagenesis. Genetics. 1979 May;92(1 Pt 1 Suppl):s121-6
Latest

J:330334 Zhang H, et al., The RNA ligase RNA terminal phosphate cyclase B regulates mRNA alternative splicing and is required for mouse oocyte development and maintenance. Development. 2022 Oct 1;149(19):dev200497

TSS for Rtcb:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr98756	Chr10:85793639-85793682 (-)	-4 bp
Tssr98755	Chr10:85793599-85793625 (-)	45 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
Citing These Resources Funding Information Warranty Disclaimer, Privacy Notice, Licensing, & Copyright Send questions and comments to User Support.	last database update 12/10/2024 MGI 6.24