ALX4 (ALX homeobox 4) - Rat Genome Database

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Gene: ALX4 (ALX homeobox 4) Sus scrofa
Analyze
Symbol: ALX4
Name: ALX homeobox 4
RGD ID: 14217766
Description: ENCODES a protein that exhibits DNA binding (inferred); DNA-binding transcription activator activity, RNA polymerase II-specific (inferred); DNA-binding transcription factor activity (inferred); INVOLVED IN anterior/posterior pattern specification (ortholog); digestive tract development (ortholog); embryonic digit morphogenesis (ortholog); ASSOCIATED WITH Adenomatous Polyps (ortholog); bronchiolo-alveolar adenocarcinoma (ortholog); colorectal cancer (ortholog); FOUND IN nucleoplasm (inferred); nucleus (inferred); transcription regulator complex (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: homeobox protein aristaless-like 4
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl218,037,401 - 18,085,683 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1218,070,726 - 18,085,685 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2219,626,044 - 19,627,294 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
ALX4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl218,037,401 - 18,085,683 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1218,070,726 - 18,085,685 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2219,626,044 - 19,627,294 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ALX4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381144,260,440 - 44,310,139 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1144,260,440 - 44,310,139 (-)EnsemblGRCh38hg38GRCh38
GRCh371144,281,990 - 44,331,689 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361144,242,734 - 44,288,292 (-)NCBINCBI36Build 36hg18NCBI36
Build 341144,242,733 - 44,288,292NCBI
Celera1144,429,565 - 44,479,005 (-)NCBICelera
Cytogenetic Map11p11.2NCBI
HuRef1143,991,253 - 44,040,694 (-)NCBIHuRef
CHM1_11144,281,300 - 44,330,733 (-)NCBICHM1_1
T2T-CHM13v2.01144,415,783 - 44,465,465 (-)NCBIT2T-CHM13v2.0
Alx4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39293,472,779 - 93,511,686 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl293,472,729 - 93,511,684 (+)EnsemblGRCm39 Ensembl
GRCm38293,642,434 - 93,681,341 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl293,642,384 - 93,681,339 (+)EnsemblGRCm38mm10GRCm38
MGSCv37293,482,591 - 93,521,496 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36293,443,273 - 93,478,775 (+)NCBIMGSCv36mm8
Celera295,046,101 - 95,085,009 (+)NCBICelera
Cytogenetic Map2E1NCBI
cM Map251.62NCBI
Alx4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83100,067,052 - 100,103,624 (+)NCBIGRCr8
mRatBN7.2379,611,682 - 79,648,260 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl379,611,719 - 79,648,260 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx383,085,796 - 83,122,265 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0391,684,866 - 91,721,334 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0389,536,444 - 89,573,057 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0382,548,959 - 82,585,531 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl382,548,959 - 82,585,531 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0389,249,541 - 89,286,113 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4378,057,714 - 78,094,285 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1377,954,190 - 77,990,612 (+)NCBI
Celera378,814,063 - 78,850,575 (+)NCBICelera
Cytogenetic Map3q31NCBI
Alx4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554223,278,615 - 3,291,714 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554223,278,615 - 3,290,799 (+)NCBIChiLan1.0ChiLan1.0
ALX4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2946,474,416 - 46,524,451 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11146,464,895 - 46,530,312 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01144,219,865 - 44,269,597 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11144,714,503 - 44,729,758 (-)NCBIpanpan1.1PanPan1.1panPan2
ALX4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11844,922,042 - 44,967,557 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1844,922,150 - 44,967,550 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1843,590,411 - 43,635,910 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01845,583,479 - 45,629,082 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1845,583,532 - 45,629,081 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11845,066,662 - 45,112,191 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01844,620,210 - 44,665,671 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01845,356,336 - 45,401,930 (+)NCBIUU_Cfam_GSD_1.0
Alx4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494722,204,908 - 22,218,129 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365624,314,870 - 4,326,000 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365624,316,550 - 4,326,022 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ALX4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1121,051,413 - 21,099,159 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl121,051,580 - 21,097,605 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666038118,279,875 - 118,329,166 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Alx4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247673,770,762 - 3,805,323 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247673,770,755 - 3,808,511 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in ALX4
641 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 nervous system
High
Medium
Low
Below cutoff 2 2

Sequence


RefSeq Acc Id: ENSSSCT00000052641   ⟹   ENSSSCP00000037650
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl218,037,401 - 18,085,683 (+)Ensembl
RefSeq Acc Id: XM_021083157   ⟹   XP_020938816
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1218,070,726 - 18,085,685 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_020938816 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSSCP00000037650.1
RefSeq Acc Id: XP_020938816   ⟸   XM_021083157
- Sequence:
RefSeq Acc Id: ENSSSCP00000037650   ⟸   ENSSSCT00000052641
Protein Domains
Homeobox   OAR


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000040329 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000052641.3 UniProtKB/TrEMBL
Gene3D-CATH Homeodomain-like UniProtKB/TrEMBL
InterPro Homeobox-like_sf UniProtKB/TrEMBL
  Homeobox_CS UniProtKB/TrEMBL
  Homeobox_dom UniProtKB/TrEMBL
  OAR_dom UniProtKB/TrEMBL
NCBI Gene ALX4 ENTREZGENE
PANTHER HOMEOBOX PROTEIN ARISTALESS UniProtKB/TrEMBL
  PTHR24329:SF322 UniProtKB/TrEMBL
Pfam Homeodomain UniProtKB/TrEMBL
  OAR UniProtKB/TrEMBL
PROSITE HOMEOBOX_1 UniProtKB/TrEMBL
  HOMEOBOX_2 UniProtKB/TrEMBL
  OAR UniProtKB/TrEMBL
SMART HOX UniProtKB/TrEMBL
Superfamily-SCOP SSF46689 UniProtKB/TrEMBL
UniProt A0A287A150_PIG UniProtKB/TrEMBL
VGNC ID VGNC:96791 ENTREZGENE