H-InvDB_9.0 released on May 27, 2015.
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H-Inv ID (HIT)
H-Inv cluster ID (HIX)
H-Inv protein ID (HIP)
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Definition*
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---
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H-Invitational ID:
HIT000071808
Accession number:
AF152504
Created date:
26-Mar-2013
Last modified:
27-May-2015
Definition:
Protocadherin gamma-A11; PCDH-gamma-A11; Precursor;
Select format
Flat file
XML file
Nucleotide sequence fasta
Protein sequence fasta
Transcript original information
Accession number
AF152504.1
CAGE tag ID
NA
EST ID
NA
Clone Number
NA
Experimental resources
NBRC
;
HGPD
;
Antibody (PCDHGC5)
;
Catalog (PCDHGC5)
;
Sequence data provider
NA
Annotation project
NA
Length of cDNA
2262[bp] (No. of exon:4)[A:563 T:478 G:618 C:603]
Devision
HUM
Molecular type
mRNA
Library origin
Cell type
NA
Tissue type
NA
Develpmental stage
NA
Sequence quality information
CDS feature
Complete CDS
Kozak sequence
NA
PolyA
NA
Vector/adapter sequence
NA
Frame shift
NA
Remaining intron
NA
Splice site acceptor (NAGNAG)
CAGAAG;
Transcript quality feature
NA
Notes
NA
ATGGCGAATCGGCTACAGCGCGGGGACCGCAGTCGGCTGCTGCTGCTGCT GTGCATTTTCCTGGGGACGCTGCGGGGGTTCCGGGCCAGGCAGATCCGAT ATTCGGTGCCAGAAGAGACCGAAAAGGGCTCCTTCGTGGGCAATATCTCC AAGGACCTGGGGCTGGAGCCCCGGGAGCTGGCGAAGCGCGGAGTCCGCAT CGTCTCCAGAGGGAAGACACAGCTTTTCGCTGTGAATCCGCGAAGCGGCA GCTTGATCACGGCAGGCAGGATAGACCGGGAGGAGCTCTGTGAGACGGTG TCCTCCTGTTTTTTAAATATGGAACTTCTCGTGGAAGACACCTTGAAGAT TTACGGAGTGGAGGTGGAAATAATAGATATTAATGATAACGCCCCCAGCT TCCAGGAGGACGAAGTGGAGATAAAAGTCAGTGAGCACGCAATTCCTGGG GCGCGATTTGCTCTTCCTAATGCTAGGGATCCAGATGTGGGCGTGAACTC CCTCCAGAGCTACCAGCTCAGCCCTAATAATTACTTTTCCTTGCAACTGC GGGGCAGAACGGATGGGGCCAAGAATCCAGAGCTAGTACTGGAGGGAAGC CTGGACCGAGAGAAAGAGGCTGCTCACCTGCTCCTCCTCACAGCTTTAGA TGGAGGCGATCCCATCCGAAAGGGCGCAGTTCCCATTCGTGTGGTGGTCC TCGATGTAAATGATCACATCCCAATGTTTACACAGTCCGTATATCGCGTG AGTGTTCCAGAAAACATCAGCTCCGGAACTCGGGTGCTGATGGTTAATGC AACGGATCCAGACGAGGGAATCAACGGGGAAGTAATGTATTCATTTCGGA ACATGGAAAGCAAGGCTTCTGAAATATTCCAATTGGATTCACAAACTGGA GAAGTTCAAGTACGGGGGTCTCTGGATTTTGAAAAATATAGATTCTATGA GATGGAAATTCAAGGCCAAGATGGTGGAGGTCTCTTTACCACCACGACGA TGTTGATCACTGTTGTGGATGTGAATGATAACGCTCCAGAAATAACTATC ACCTCTTCTATTAATTCAATTCTGGAAAACTCTCCTCCAGGTACAGTGAT TGCTCTTCTAAATGTGCAAGATCAAGATTCTGGAGAAAATGGTCAAGTCT CCTGTTTTATTCCTAACCACCTGCCTTTTAAATTAGAAAAGACTTATGGA AATTATTACAAATTGATAACAAGCAGAGTGCTGGACAGGGAGTTGGTCCA GAGCTACAATATAACGTTGACAGCCACAGACCAGGGAAGCCCGCCTTTGT CTGCAGAAACTCATGTCTGGCTGAATGTGGCAGATGACAACGATAACCCT CCCGTTTTTCCTCACTCCTCTTACTCTGCCTACATTCCCGAAAACAACCC CAGGGGTGCCTCCATCTTCTCAGTGACCGCCCTCGACCCGGACAGCAAAC AGAATGCCCTGGTCACTTACTCTCTGACGGATGACACTGTCCAGGGGGTG CCTCTGTCCTCCTATGTCTCTATTAACTCCAACACTGGTGTTCTCTATGC CCTACAATCCTTCGACTATGAGCAGTTTCGAGACTTAGAACTGAGAGTGA TAGCACGTGACAGCGGGGACCCGCCCCTCAGCAGCAACGTGTCGCTGAGC CTGTTCGTGCTGGACCAGAACGACAATGCGCCCGAGATCCTGTACCCTGC CCTCCCCACAGACGGCTCCACTGGCGTGGAGCTGGCGCCCCGCTCTGCGG AACCTGGCTACCTGGTGACCAAGGTGGTTGCGGTGGACAAAGATTCAGGC CAGAACGCCTGGCTGTCCTATCGCCTGCTTAAGGCCAGCGAGCCGGGACT CTTCGCGGTGGGGGAGCACACGGGCGAGCAAGCCCCGCCCAACACGGACT GGCGTTTCTCTCAGGCCCAGAGACCCGGCACCAGCGGCTCCCAAAATGGC GATGACACCGGCACCTGGCCCAACAACCAGTTTGACACAGAGATGCTGCA AGCCATGATCTTGGCGTCCGCCAGTGAAGCTGCTGATGGGAGCTCCACCC TGGGAGGGGGTGCCGGCACCATGGGATTGAGCGCCCGCTACGGACCCCAG TTCACCCTGCAGCACGTGCCCGACTACCGCCAGAATGTCTACATCCCAGG CAGCAATGCCACACTGACCAACGCAGCTGGCAAGCGGGATGGCAAGGCCC CAGCAGGTGGCAATGGCAACAAGAAGAAGTCGGGCAAGAAGGAGAAGAAG TAACATGGAGCC
Gene structure information
H-Inv cluster ID
HIX0005252
Genomic location
Chromosome
5
Location
5q31.3
Position
140800795- 140890747
Strand
+
Possible duplicated location(s)
NA
Gene structure
4 exon(s)
Database links
RefSeq
NA
Ensembl
NA
Entrez Gene
Entrez Gene ID:56105
;
KEGG GENES
KEGG GENES(56105)
;
GeneCard
PCDHGC5
;
*GeneCards is provided free to academic non-profit institutions.
Related H-InvDB links
H-DBAS
;
G-integra
;
cDNA-genome alignment
;
Predicted CDS information
HIP ID
HIP000030816
Predicted CDS
1..2253; 750[aa]; Orientation:+1;
Codon Adaptation Index (CAI).
0.766
Database links
RefSeq
NP_114481
;
UniProt
NA
CCDS
CCDS54930
;
MANRLQRGDRSRLLLLLCIFLGTLRGFRARQIRYSVPEETEKGSFVGNIS KDLGLEPRELAKRGVRIVSRGKTQLFAVNPRSGSLITAGRIDREELCETV SSCFLNMELLVEDTLKIYGVEVEIIDINDNAPSFQEDEVEIKVSEHAIPG ARFALPNARDPDVGVNSLQSYQLSPNNYFSLQLRGRTDGAKNPELVLEGS LDREKEAAHLLLLTALDGGDPIRKGAVPIRVVVLDVNDHIPMFTQSVYRV SVPENISSGTRVLMVNATDPDEGINGEVMYSFRNMESKASEIFQLDSQTG EVQVRGSLDFEKYRFYEMEIQGQDGGGLFTTTTMLITVVDVNDNAPEITI TSSINSILENSPPGTVIALLNVQDQDSGENGQVSCFIPNHLPFKLEKTYG NYYKLITSRVLDRELVQSYNITLTATDQGSPPLSAETHVWLNVADDNDNP PVFPHSSYSAYIPENNPRGASIFSVTALDPDSKQNALVTYSLTDDTVQGV PLSSYVSINSNTGVLYALQSFDYEQFRDLELRVIARDSGDPPLSSNVSLS LFVLDQNDNAPEILYPALPTDGSTGVELAPRSAEPGYLVTKVVAVDKDSG QNAWLSYRLLKASEPGLFAVGEHTGEQAPPNTDWRFSQAQRPGTSGSQNG DDTGTWPNNQFDTEMLQAMILASASEAADGSSTLGGGAGTMGLSARYGPQ FTLQHVPDYRQNVYIPGSNATLTNAAGKRDGKAPAGGNGNKKKSGKKEKK *
Motif information
a.a.
length
InterPro
Name
72
IPR015919
Cadherin-like [Domain]
81
IPR002126
Cadherin [Domain]
107
IPR002126
Cadherin [Domain]
83
IPR013164
Cadherin, N-terminal [Domain]
101
IPR002126
Cadherin [Domain]
20
IPR002126
Cadherin [Domain]
11
IPR020894
Cadherin conserved site [Conserved_site]
116
IPR002126
Cadherin [Domain]
108
IPR015919
Cadherin-like [Domain]
109
IPR002126
Cadherin [Domain]
86
IPR002126
Cadherin [Domain]
11
IPR020894
Cadherin conserved site [Conserved_site]
130
IPR015919
Cadherin-like [Domain]
104
IPR002126
Cadherin [Domain]
30
IPR002126
Cadherin [Domain]
105
IPR002126
Cadherin [Domain]
91
IPR002126
Cadherin [Domain]
82
IPR002126
Cadherin [Domain]
13
IPR002126
Cadherin [Domain]
20
IPR002126
Cadherin [Domain]
11
IPR020894
Cadherin conserved site [Conserved_site]
105
IPR015919
Cadherin-like [Domain]
105
IPR002126
Cadherin [Domain]
105
IPR002126
Cadherin [Domain]
88
IPR002126
Cadherin [Domain]
82
IPR002126
Cadherin [Domain]
11
IPR020894
Cadherin conserved site [Conserved_site]
125
IPR015919
Cadherin-like [Domain]
115
IPR002126
Cadherin [Domain]
14
IPR002126
Cadherin [Domain]
110
IPR002126
Cadherin [Domain]
96
IPR002126
Cadherin [Domain]
87
IPR002126
Cadherin [Domain]
27
IPR002126
Cadherin [Domain]
18
IPR002126
Cadherin [Domain]
11
IPR020894
Cadherin conserved site [Conserved_site]
71
IPR015919
Cadherin-like [Domain]
47
IPR002126
Cadherin [Domain]
Gene function information
H-Inv ID
HIT000071808
H-Inv cluster ID
HIX0005252
Accession number
AF152504.1
CAGE tag ID
NA
EST ID
NA
Transcript feature
NO;
Splicing isoform
Coding potential
Protein coding;
Definition
Protocadherin gamma-A11; PCDH-gamma-A11; Precursor;
Similarity category
Category: Identical to known human protein(Category I).
Identical to known human protein (
Q9Y5H2
) [Identity/coverage = 99.867%/100.0%] to Homo sapiens (Human). protein.
Experimental evidence
Protein evidence
PubMed ID
10380929
;
15489334
;
ALL
;
Gene family/group
H-Inv gene family/group ID
NA
Gene family/group name
NA
Evidence motif (InterPro) ID
NA
Gene symbol/name
HGNC symbol
PCDHGC5
HGNC aliases
NA
HGNC name
protocadherin gamma subfamily C, 5
DDBJ
PCDH-gamma-A11
UniProt
PCDHGA11
EC number
NA
GGDB
(GlycoGene Database)
Gene symbol
NA
Familly
NA
Designation
NA
Expression
NA
KEGG metabolic pathway
NA
Protein-protein interaction (PPI)
H-Inv protein ID
HIP000030816
No. of interaction
NA
Interaction partner(s)
NA
BIND
NA
DIP
NA
MINT
NA
HPRD
NA
IntAct
NA
Database links
RefSeq
NA
Ensembl
NA
Entrez Gene
Entrez Gene ID:56105
;
KEGG GENES
KEGG GENES(56105)
;
GeneCard
PCDHGC5
;
*GeneCards is provided free to academic non-profit institutions.
etc
Human-Gene diversity Of Life-style related Diseases
;
Curation status
Auto-annotated
Notes
NA
Related H-InvDB links
Gene family;
Similarity Search Tool;
TACT
;
fRNAdb (The functional RNA database) : overlapping fRNAdb entries with H-InvDB transcripts based on the location of the genome.
NA
Gene ontology information
Molecular function
calcium ion binding (
GO:0005509
);
Biological process
cell adhesion (
GO:0007155
); homophilic cell adhesion (
GO:0007156
);
Cellular component
membrane (
GO:0016020
); plasma membrane (
GO:0005886
);
Subcellular localization information
Last modified:27-May-2015
WoLF PSORT
extracellular; mitochondria; lysosome; Other;
Target P
mitochondria
SOSUI
soluble protein
TMHMM
membrane protein
PTS1
Targeted
Related H-InvDB links
LIFEdb;
JRE-1.4.0 or later is required.
Download JRE at
Sun's web site.
Protein structure information (GTOP)
Last modified:27-May-2015
Start
End
PDB_ID
E-value
Identity
Coverage
SCOP_ID
31
97
1f5aA1
2e-18
19.7
61/118
d.58.16.1
74
167
2fwuA1
4e-09
14.1
90/157
b.1.27.1
202
525
2nlzA1
6e-66
14.2
302/533
d.153.1.6
505
626
1o75A3
4e-11
7.5
115/191
b.120.1.1
Related H-InvDB links
GTOP
Gene expression information
Last modified:27-May-2015
Tissue-specific expression
NA
Probe
information
AceGene
NA
Affymetrix
GeneChip
HG-Focus
NA
HG-U133
211876_x_at; 216352_x_at;
HG-U133A
211876_x_at; 216352_x_at;
HG-U133A_2
211876_x_at; 216352_x_at;
HG-U133B
NA
HG-U133_Plus_2
211876_x_at; 216352_x_at;
HG-U95
NA
HG-U95A
NA
HG-U95B
NA
HG-U95C
NA
HG-U95D
NA
HG-U95E
NA
HG-U95Av2
NA
HuEx-1_0
2832655; 2832656; 2832751; 2832754; 2832758; 2832759; 2832760; 2832761; 2878647; 2878650;
HuGeneFL
NA
Agilent
Human 1A Oligo Microarray:PGID215
NA
Whole Human Genome Oligo Microarray:PGID247
NA
Related H-InvDB links
H-ANGEL
;
DNAProbeLocator
;
Polymorphism (SNP, indel), microsatellite (Short Tandem Repeat, STR) and repeat information
Single Nucleotide Polymorphism (SNP) and indel
Location
Variation
dbSNP ID
Strand
CDS/UTR
Translation
6 .. 6
G/A
rs201076931
+
CDS
Synonymous[Ala2Ala]
16 .. 16
C/A
rs201273667
+
CDS
Nonsynonymous[Gln6Lys]
60 ^ 61
-/C
rs35600583
+
CDS
70 .. 70
C/T
rs143092131
+
CDS
Synonymous[Leu24Leu]
84 .. 84
G/A
rs199877605
+
CDS
Synonymous[Arg28Arg]
86 .. 86
C/T
rs201429116
+
CDS
Nonsynonymous[Ala29Val]
115 .. 115
G/A
rs199737254
+
CDS
Nonsynonymous[Glu39Lys]
120 .. 120
C/T
rs147068995
+
CDS
Synonymous[Thr40Thr]
121 .. 121
G/C
rs202220769
+
CDS
Nonsynonymous[Glu41Gln]
162 .. 162
G/A
rs200646513
+
CDS
Synonymous[Gly54Gly]
289 .. 289
T/G
rs199973694
+
CDS
Nonsynonymous[Cys97Gly]
306 .. 306
C/T
rs80184002
+
CDS
Synonymous[Ser102Ser]
310 .. 310
T/C
rs11167744
+
CDS
Nonsynonymous[Phe104Leu]
368 .. 368
A/G
rs77665158
+
CDS
Nonsynonymous[Glu123Gly]
399 .. 399
C/G
rs201673318
+
CDS
Nonsynonymous[Ser133Arg]
504 .. 504
C/A
rs73792198
+
CDS
Synonymous[Leu168Leu]
604 .. 604
G/C
rs201283981
+
CDS
Nonsynonymous[Asp202His]
632 .. 632
T/C
rs138408376
+
CDS
Nonsynonymous[Leu211Pro]
642 .. 642
A/G
rs200015978
+
CDS
Synonymous[Thr214Thr]
714 .. 714
T/C
rs186605459
+
CDS
Synonymous[Asp238Asp]
726 .. 726
G/A
rs193141134
+
CDS
Nonsynonymous[Met242Ile]
757 .. 757
C/G
rs201871921
+
CDS
Nonsynonymous[Pro253Ala]
784 .. 784
G/T
rs200879435
+
CDS
Nonsynonymous[Val262Leu]
799 .. 799
G/A
rs118080774
+
CDS
Nonsynonymous[Ala267Thr]
977 .. 977
G/A
rs185669562
+
CDS
Nonsynonymous[Gly326Glu]
1069 .. 1069
A/G
rs200545713
+
CDS
Nonsynonymous[Ile357Val]
1082 .. 1082
C/T
rs199660151
+
CDS
Nonsynonymous[Ser361Phe]
1103 .. 1103
C/T
rs200342957
+
CDS
Nonsynonymous[Ala368Val]
1156 .. 1156
T/C
rs201301291
+
CDS
Nonsynonymous[Phe386Leu]
1208 .. 1208
A/G
rs199795822
+
CDS
Nonsynonymous[Tyr403Cys]
1209 .. 1209
C/T
rs200737047
+
CDS
Synonymous[Tyr403Tyr]
1405 .. 1405
G/T
rs199543811
+
CDS
Nonsynonymous[Gly469Cys]
1428 .. 1428
C/T
rs188587553
+
CDS
Synonymous[Thr476Thr]
1522 .. 1522
A/G
rs202046219
+
CDS
Nonsynonymous[Ile508Val]
1580 .. 1580
G/A
rs199507728
+
CDS
Nonsynonymous[Arg527Gln]
1605 .. 1605
A/G
rs12520854
+
CDS
Synonymous[Ala535Ala]
1611 .. 1611
C/T
rs201218542
+
CDS
Synonymous[Asp537Asp]
1623 .. 1623
G/A
rs184432819
+
CDS
Synonymous[Pro541Pro]
1640 .. 1640
T/C
rs116031289
+
CDS
Nonsynonymous[Val547Ala]
1657 .. 1657
G/C
rs202035589
+
CDS
Nonsynonymous[Val553Leu]
1662 .. 1662
G/A
rs62378455
+
CDS
Synonymous[Leu554Leu]
1693 .. 1693
T/G
rs13173779
+
CDS
Nonsynonymous[Tyr565Asp]
1696 .. 1696
C/T
rs188787674
+
CDS
Nonsynonymous[Pro566Ser]
1704 .. 1704
C/T
rs13188208
+
CDS
Synonymous[Leu568Leu]
1715 .. 1715
G/T
rs199976232
+
CDS
Nonsynonymous[Gly572Val]
1716 .. 1716
C/G
rs13188214
+
CDS
Synonymous[Gly572Gly]
1718 .. 1718
C/T
rs13188215
+
CDS
Nonsynonymous[Ser573Phe]
1770 .. 1770
C/T
rs114907564
+
CDS
Synonymous[Thr590Thr]
1775 .. 1775
T/G
rs13173820
+
CDS
Nonsynonymous[Val592Gly]
1824 .. 1824
C/T
rs200022455
+
CDS
Synonymous[Arg608Arg]
1826 .. 1826
T/C
rs200154593
+
CDS
Nonsynonymous[Leu609Pro]
1862 .. 1862
G/C
rs201821221
+
CDS
Nonsynonymous[Gly621Ala]
1869 .. 1869
C/T
rs200931939
+
CDS
Synonymous[His623His]
1915 .. 1915
G/A
rs201391904
+
CDS
Nonsynonymous[Ala639Thr]
1927 .. 1927
G/A
rs200418116
+
CDS
Nonsynonymous[Gly643Ser]
1983 .. 1983
T/C
rs149352680
+
CDS
Synonymous[Phe661Phe]
2082 .. 2082
C/T
rs143630962
+
CDS
Synonymous[Ser694Ser]
2083 .. 2083
G/A
rs114669158
+
CDS
Nonsynonymous[Ala695Thr]
2086 .. 2086
C/T
rs148119281
+
CDS
Nonsynonymous[Arg696Cys]
2091 .. 2091
C/T
rs141873183
+
CDS
Synonymous[Tyr697Tyr]
2094 .. 2094
A/G
rs2233612
+
CDS
Synonymous[Gly698Gly]
2116 .. 2116
G/A
rs116366286
+
CDS
Nonsynonymous[Val706Met]
2129 .. 2129
G/A
rs61749029
+
CDS
Nonsynonymous[Arg710His]
2156 .. 2156
A/G
rs201009079
+
CDS
Nonsynonymous[Asn719Ser]
2172 .. 2172
C/T
rs143362044
+
CDS
Synonymous[Asn724Asn]
2215 .. 2215
G/A
rs200541479
+
CDS
Nonsynonymous[Gly739Ser]
2231 .. 2231
C/T
rs202071188
+
CDS
Nonsynonymous[Ser744Leu]
2250 .. 2250
G/A
rs147534370
+
CDS
Synonymous[Lys750Lys]
Microsatellite (Short Tandem Repeat, STR)
No data available
Microsatellite: Human-Gene diversity Of Life-style related Diseases (H-GOLD)
No data available
Repeat
No data available
Database links
Human-Gene diversity Of Life-style related Diseases(H-GOLD)
;
Related H-InvDB links
VaryGene
;
Repeat Mask Viewer
;