SCAND3 (SCAN domain containing 3) - Rat Genome Database

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Gene: SCAND3 (SCAN domain containing 3) Canis lupus familiaris
Analyze
Symbol: SCAND3
Name: SCAN domain containing 3
RGD ID: 12359989
Description: ENCODES a protein that exhibits nucleic acid binding (inferred); INVOLVED IN DNA integration (inferred); positive regulation of cell cycle (inferred); positive regulation of epithelial cell proliferation (inferred); ASSOCIATED WITH genetic disease (ortholog); megacolon (ortholog); FOUND IN cytoplasm (inferred); nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: SCAN domain-containing protein 3; ZBED9; zinc finger BED-type containing 9; zinc finger protein 452; ZNF452
RGD Orthologs
Human
Bonobo
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13525,691,881 - 25,720,415 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3525,694,078 - 25,720,226 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3525,552,491 - 25,578,888 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03525,992,497 - 26,018,921 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3525,992,507 - 26,019,091 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13525,656,037 - 25,682,397 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03525,711,176 - 25,737,553 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03527,180,291 - 27,206,694 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IEA)
nucleus  (IEA)

Molecular Function

References
Additional References at PubMed
PMID:22301074  


Genomics

Comparative Map Data
SCAND3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13525,691,881 - 25,720,415 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3525,694,078 - 25,720,226 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3525,552,491 - 25,578,888 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03525,992,497 - 26,018,921 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3525,992,507 - 26,019,091 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13525,656,037 - 25,682,397 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03525,711,176 - 25,737,553 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03527,180,291 - 27,206,694 (-)NCBIUU_Cfam_GSD_1.0
SCAND3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38628,570,535 - 28,616,202 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl628,570,535 - 28,616,212 (-)EnsemblGRCh38hg38GRCh38
GRCh37628,538,312 - 28,583,979 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36628,647,386 - 28,663,091 (-)NCBINCBI36Build 36hg18NCBI36
Build 34628,647,386 - 28,663,091NCBI
Celera630,145,800 - 30,161,506 (-)NCBICelera
Cytogenetic Map6p22.1NCBI
HuRef628,345,626 - 28,361,127 (-)NCBIHuRef
CHM1_1628,541,742 - 28,557,447 (-)NCBICHM1_1
T2T-CHM13v2.0628,441,914 - 28,487,574 (-)NCBIT2T-CHM13v2.0
SCAND3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2543,199,851 - 43,246,160 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1639,200,746 - 39,225,473 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0628,386,244 - 28,402,589 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1629,056,293 - 29,101,059 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl629,056,577 - 29,071,681 (-)Ensemblpanpan1.1panPan2
Zbed9
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494628,999,267 - 29,022,074 (-)NCBIHiC_Itri_2
SpeTri2.0NW_004936914427,539 - 448,547 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ZBED9
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl722,312,590 - 22,332,370 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1722,312,155 - 22,332,961 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2724,256,274 - 24,277,083 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ZBED9
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11743,975,083 - 43,991,082 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604428,271,924 - 28,288,072 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in SCAND3
444 total Variants

Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 2 7 1 4
Low 5 5 20 6 6 6 6 6 5 7 6 6
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000018944   ⟹   ENSCAFP00000017556
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl3525,694,078 - 25,720,226 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845031013   ⟹   ENSCAFP00845024300
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl3525,992,507 - 26,019,091 (-)Ensembl
RefSeq Acc Id: XM_005640139   ⟹   XP_005640196
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.13525,691,881 - 25,720,415 (-)NCBI
Dog10K_Boxer_Tasha3525,552,491 - 25,578,888 (-)NCBI
Sequence:
RefSeq Acc Id: XM_038446649   ⟹   XP_038302577
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.03525,992,497 - 26,018,921 (-)NCBI
RefSeq Acc Id: XM_038520824   ⟹   XP_038376752
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.13525,656,037 - 25,682,397 (-)NCBI
RefSeq Acc Id: XM_038584453   ⟹   XP_038440381
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.03527,180,291 - 27,206,694 (-)NCBI
RefSeq Acc Id: XM_038648857   ⟹   XP_038504785
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.03525,711,176 - 25,737,553 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: XP_005640196   ⟸   XM_005640139
- Peptide Label: isoform X1
- UniProtKB: A0A8I3NSP7 (UniProtKB/TrEMBL),   A0A8P0NDP4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000017556   ⟸   ENSCAFT00000018944
RefSeq Acc Id: XP_038376752   ⟸   XM_038520824
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038504785   ⟸   XM_038648857
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038302577   ⟸   XM_038446649
- Peptide Label: isoform X1
- UniProtKB: A0A8I3NSP7 (UniProtKB/TrEMBL),   A0A8P0NDP4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038440381   ⟸   XM_038584453
- Peptide Label: isoform X1
- UniProtKB: A0A8I3NSP7 (UniProtKB/TrEMBL),   A0A8P0NDP4 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845024300   ⟸   ENSCAFT00845031013
Protein Domains
Integrase catalytic   SCAN box


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000011719 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030022048 UniProtKB/TrEMBL
  ENSCAFG00845017503 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000018944.5 UniProtKB/TrEMBL
  ENSCAFT00030040479.1 UniProtKB/TrEMBL
  ENSCAFT00845031013 ENTREZGENE
  ENSCAFT00845031013.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.4020.10 UniProtKB/TrEMBL
  3.30.420.10 UniProtKB/TrEMBL
InterPro Integrase_cat-core UniProtKB/TrEMBL
  RNaseH-like_sf UniProtKB/TrEMBL
  RNaseH_sf UniProtKB/TrEMBL
  SCAN_dom UniProtKB/TrEMBL
  SCAN_sf UniProtKB/TrEMBL
NCBI Gene ZBED9 ENTREZGENE
PANTHER KRAB-A DOMAIN-CONTAINING PROTEIN 2 UniProtKB/TrEMBL
  PROTEIN ZBED8-RELATED UniProtKB/TrEMBL
Pfam SCAN UniProtKB/TrEMBL
PROSITE INTEGRASE UniProtKB/TrEMBL
  SCAN_BOX UniProtKB/TrEMBL
SMART SCAN UniProtKB/TrEMBL
Superfamily-SCOP Retrovirus capsid dimerization domain-like UniProtKB/TrEMBL
  SSF53098 UniProtKB/TrEMBL
UniProt A0A8C0PA46_CANLF UniProtKB/TrEMBL
  A0A8I3NSP7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0NDP4 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:48518 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-10-10 SCAND3  SCAN domain containing 3  ZBED9  zinc finger BED-type containing 9  Symbol and/or name change 19259463 PROVISIONAL