CARMIL1 (capping protein regulator and myosin 1 linker 1) - Rat Genome Database

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Gene: CARMIL1 (capping protein regulator and myosin 1 linker 1) Sus scrofa
Analyze
Symbol: CARMIL1
Name: capping protein regulator and myosin 1 linker 1
RGD ID: 14068696
Description: ENCODES a protein that exhibits protein-containing complex binding (inferred); INVOLVED IN actin filament network formation (inferred); barbed-end actin filament uncapping (inferred); cell migration (inferred); ASSOCIATED WITH genetic disease (ortholog); sensorineural hearing loss (ortholog); FOUND IN cell leading edge (inferred); cytosol (inferred); filamentous actin (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: F-actin-uncapping protein LRRC16A; leucine rich repeat containing 16A; leucine-rich repeat-containing protein 16A; LRRC16A
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 Ensembl720,036,944 - 20,353,420 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1720,036,430 - 20,353,431 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2721,336,649 - 21,653,380 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
CARMIL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl720,036,944 - 20,353,420 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1720,036,430 - 20,353,431 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2721,336,649 - 21,653,380 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CARMIL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38625,279,374 - 25,620,530 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl625,279,078 - 25,620,530 (+)EnsemblGRCh38hg38GRCh38
GRCh37625,279,602 - 25,620,758 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36625,387,627 - 25,728,737 (+)NCBINCBI36Build 36hg18NCBI36
Build 34625,618,947 - 25,728,735NCBI
Celera626,506,841 - 26,847,962 (+)NCBICelera
Cytogenetic Map6p22.2NCBI
HuRef625,222,808 - 25,563,750 (+)NCBIHuRef
CHM1_1625,281,915 - 25,622,956 (+)NCBICHM1_1
T2T-CHM13v2.0625,145,130 - 25,486,328 (+)NCBIT2T-CHM13v2.0
Carmil1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391324,196,464 - 24,464,983 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1324,196,327 - 24,464,778 (-)EnsemblGRCm39 Ensembl
GRCm381324,012,481 - 24,280,802 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1324,012,344 - 24,280,795 (-)EnsemblGRCm38mm10GRCm38
MGSCv371324,104,353 - 24,372,659 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361324,020,124 - 24,288,260 (-)NCBIMGSCv36mm8
Celera1324,244,108 - 24,511,349 (-)NCBICelera
Cytogenetic Map13A3.1NCBI
cM Map1310.05NCBI
Carmil1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81741,235,819 - 41,516,204 (+)NCBIGRCr8
mRatBN7.21740,807,921 - 41,088,326 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1740,808,389 - 41,088,326 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1740,876,765 - 41,155,794 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01742,480,814 - 42,759,841 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01740,764,512 - 41,044,161 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01743,050,282 - 43,339,403 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1743,050,789 - 43,339,403 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01744,916,362 - 45,196,987 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41747,923,987 - 48,206,590 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11747,915,609 - 48,164,927 (+)NCBI
Celera1740,440,272 - 40,720,033 (+)NCBICelera
Cytogenetic Map17p11NCBI
Carmil1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554831,463,805 - 1,770,520 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554831,463,856 - 1,770,798 (-)NCBIChiLan1.0ChiLan1.0
CARMIL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2539,926,637 - 40,267,413 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1635,928,268 - 36,268,764 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0625,114,221 - 25,454,984 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1625,440,972 - 25,781,027 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl625,441,682 - 25,780,092 (+)Ensemblpanpan1.1panPan2
CARMIL1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13523,268,438 - 23,581,794 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3523,268,723 - 23,581,403 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3523,235,876 - 23,527,314 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03523,385,384 - 23,697,506 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3523,383,399 - 23,697,501 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13523,195,743 - 23,505,905 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03523,244,683 - 23,557,494 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03524,683,032 - 24,995,158 (+)NCBIUU_Cfam_GSD_1.0
Carmil1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049461,988,229 - 2,216,964 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366711,404,589 - 1,633,328 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366711,404,595 - 1,632,916 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CARMIL1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11746,637,416 - 46,979,061 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1746,635,199 - 46,978,932 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604425,210,038 - 25,552,979 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Carmil1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247561,446,200 - 1,751,211 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247561,446,633 - 1,751,043 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in CARMIL1
16097 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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 6 2 4 3
Low 4 4 3 3 2 19 2 3
Below cutoff

Sequence


RefSeq Acc Id: ENSSSCT00000001196   ⟹   ENSSSCP00000001170
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl720,036,944 - 20,353,420 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000055211   ⟹   ENSSSCP00000035617
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl720,036,739 - 20,353,427 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000057693   ⟹   ENSSSCP00000058094
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl720,036,944 - 20,353,420 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000062876   ⟹   ENSSSCP00000051042
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl720,036,739 - 20,353,427 (+)Ensembl
RefSeq Acc Id: XM_001924364   ⟹   XP_001924399
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1720,036,993 - 20,353,425 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005665641   ⟹   XP_005665698
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1720,036,867 - 20,353,431 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013977486   ⟹   XP_013832940
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1720,036,430 - 20,353,422 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021099790   ⟹   XP_020955449
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1720,036,866 - 20,353,431 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021099791   ⟹   XP_020955450
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1720,036,739 - 20,353,431 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021099792   ⟹   XP_020955451
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1720,036,867 - 20,353,422 (+)NCBI
Sequence:
RefSeq Acc Id: XP_013832940   ⟸   XM_013977486
- Peptide Label: isoform X1
- UniProtKB: A0A480L6H6 (UniProtKB/TrEMBL),   A0A480QC93 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020955450   ⟸   XM_021099791
- Peptide Label: isoform X4
- UniProtKB: A0A8D1S3H5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020955449   ⟸   XM_021099790
- Peptide Label: isoform X2
- UniProtKB: A0A8D1BP25 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005665698   ⟸   XM_005665641
- Peptide Label: isoform X3
- UniProtKB: A0A8D1GVF2 (UniProtKB/TrEMBL),   A0A8D1S3H5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020955451   ⟸   XM_021099792
- Peptide Label: isoform X5
- UniProtKB: A0A480L6H6 (UniProtKB/TrEMBL),   A0A480QC93 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_001924399   ⟸   XM_001924364
- Peptide Label: isoform X6
- UniProtKB: A0A0B8S056 (UniProtKB/TrEMBL),   F1RTQ8 (UniProtKB/TrEMBL),   A0A480IRX4 (UniProtKB/TrEMBL),   A0A480L6H6 (UniProtKB/TrEMBL),   A0A480QC93 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000001170   ⟸   ENSSSCT00000001196
RefSeq Acc Id: ENSSSCP00000035617   ⟸   ENSSSCT00000055211
RefSeq Acc Id: ENSSSCP00000051042   ⟸   ENSSSCT00000062876
RefSeq Acc Id: ENSSSCP00000058094   ⟸   ENSSSCT00000057693

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000001100 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00035078732 UniProtKB/TrEMBL
  ENSSSCG00045007540 UniProtKB/TrEMBL
  ENSSSCG00055027121 UniProtKB/TrEMBL
  ENSSSCG00065047138 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000001196 ENTREZGENE
  ENSSSCT00000001196.5 UniProtKB/TrEMBL
  ENSSSCT00000057693.3 UniProtKB/TrEMBL
  ENSSSCT00035107477.1 UniProtKB/TrEMBL
  ENSSSCT00035107624.1 UniProtKB/TrEMBL
  ENSSSCT00035107825.1 UniProtKB/TrEMBL
  ENSSSCT00035108041.1 UniProtKB/TrEMBL
  ENSSSCT00045012917.1 UniProtKB/TrEMBL
  ENSSSCT00045013096.1 UniProtKB/TrEMBL
  ENSSSCT00045013324.1 UniProtKB/TrEMBL
  ENSSSCT00045013543.1 UniProtKB/TrEMBL
  ENSSSCT00045013761.1 UniProtKB/TrEMBL
  ENSSSCT00045013881.1 UniProtKB/TrEMBL
  ENSSSCT00045013984.1 UniProtKB/TrEMBL
  ENSSSCT00045014210.1 UniProtKB/TrEMBL
  ENSSSCT00055053623.1 UniProtKB/TrEMBL
  ENSSSCT00065064456.1 UniProtKB/TrEMBL
  ENSSSCT00065064503.1 UniProtKB/TrEMBL
  ENSSSCT00065064539.1 UniProtKB/TrEMBL
  ENSSSCT00065064585.1 UniProtKB/TrEMBL
Gene3D-CATH 2.30.29.30 UniProtKB/TrEMBL
  3.80.10.10 UniProtKB/TrEMBL
  6.10.140.1850 UniProtKB/TrEMBL
InterPro CARMIL_C UniProtKB/TrEMBL
  CARMIL_PH UniProtKB/TrEMBL
  Leu-rich_rpt UniProtKB/TrEMBL
  LRR_dom_sf UniProtKB/TrEMBL
  PH-like_dom_sf UniProtKB/TrEMBL
KEGG Report ssc:100157771 UniProtKB/TrEMBL
NCBI Gene CARMIL1 ENTREZGENE
PANTHER LEUCINE-RICH REPEAT, ISOFORM F-RELATED UniProtKB/TrEMBL
  PTHR24112:SF39 UniProtKB/TrEMBL
Pfam Carm_PH UniProtKB/TrEMBL
  CARMIL_C UniProtKB/TrEMBL
  LRR_6 UniProtKB/TrEMBL
SMART LRR_RI UniProtKB/TrEMBL
Superfamily-SCOP RNI-like UniProtKB/TrEMBL
UniProt A0A0B8S056 ENTREZGENE
  A0A287BNK8_PIG UniProtKB/TrEMBL
  A0A480IRX4 ENTREZGENE, UniProtKB/TrEMBL
  A0A480L6H6 ENTREZGENE, UniProtKB/TrEMBL
  A0A480QC93 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1BMI9_PIG UniProtKB/TrEMBL
  A0A8D1BNI6_PIG UniProtKB/TrEMBL
  A0A8D1BP25 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1GUE9_PIG UniProtKB/TrEMBL
  A0A8D1GUY9_PIG UniProtKB/TrEMBL
  A0A8D1GV86_PIG UniProtKB/TrEMBL
  A0A8D1GVF2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1GVL5_PIG UniProtKB/TrEMBL
  A0A8D1GWP5_PIG UniProtKB/TrEMBL
  A0A8D1H247_PIG UniProtKB/TrEMBL
  A0A8D1H3P3_PIG UniProtKB/TrEMBL
  A0A8D1S3H5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1YWG3_PIG UniProtKB/TrEMBL
  F1RTQ8 ENTREZGENE
UniProt Secondary F1RTQ8 UniProtKB/TrEMBL
VGNC ID VGNC:86192 ENTREZGENE