Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative CD63 antigen.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_2 g4999 g4999.t4 TTS g4999.t4 6380330 6380330
chr_2 g4999 g4999.t4 isoform g4999.t4 6380357 6384105
chr_2 g4999 g4999.t4 exon g4999.t4.exon1 6380357 6381836
chr_2 g4999 g4999.t4 cds g4999.t4.CDS1 6381563 6381836
chr_2 g4999 g4999.t4 exon g4999.t4.exon2 6382237 6382604
chr_2 g4999 g4999.t4 cds g4999.t4.CDS2 6382237 6382604
chr_2 g4999 g4999.t4 exon g4999.t4.exon3 6383154 6383482
chr_2 g4999 g4999.t4 cds g4999.t4.CDS3 6383154 6383219
chr_2 g4999 g4999.t4 exon g4999.t4.exon4 6383998 6384105
chr_2 g4999 g4999.t4 TSS g4999.t4 6384096 6384096

Sequences

>g4999.t4 Gene=g4999 Length=2285
GATTTACGCAAAAAAATTTATTCAACAAAATTATTTTATTCTTCACTCATATATTATCAT
TTTAATTTCATCATTCATCAAGTTTCTTTACATCAAAAGTTGTAAAAGCAGACAATACAC
ACATACAAACAGAAAAAAATATTTTTCATTCTGTTTCAACAAGTACTTTATCAACAGTAC
GAACAACGTTCATCACAAAACCAGACAAGCACGAGCACGTAAAAGAAAAGGAAAGAAAGT
TTTCATTACGCGGCAGCATTTACAATATTTATCATTCTTCGTTTTTCAACATTCGGTGCA
AGCAATAATAAACGTATTCTTGTTGTCTACTTGTCACTGTATTAATTAACATTATAAGAC
CTTGTATCATCATGGCAAAGGGATTTGGCATCAACTGCATTAAGTATCTAGTCTTCTTTT
TCAACTTTTTGTTCGCTATGACAGGACTATTAACAATTATAGTCGGCGCGATTATTCAGA
GTTCATATCATCATTATGAAAACTTTATTGGAGAATCTTTTTGGAGCGCTCCGATTATTC
TTATGATAGTGGGTTCATTAATCTTCTTCATATCATTCCTGGGATGCTGTGGAGCATTAC
GAGAATCGTCTTGTTTGATATTGACATTTTCAGTCTTCTTGCTATTTGTGTTTATCACTG
AAATTGGCATTGGTGTTGCTGGCTATATCAAACATGCTGAATTACCTGGTATTCTTGAGC
GTCAATTCAATAGAACTTTGGATGACTACACAACATCAATTGAGGCTCAACAGGCATGGA
GTTTGGTTCAAGGTGAATTGCAATGCTGCGGAATTTATGGACCGTTAGACTGGAAACCAA
TTTTCAAAAACAAAACTGTACCATCCACATGTTGTCACATTCTTCCAGTGAACGTGAAAA
ATTGTGAAGTCAAATATTCATCTGAAGAAGGTTGCTATCAAAAGCTTTTGGATTTCCTTG
ATACAAAATCGTTGTTATTGGGAGGTGTTGGTGTTGGAATAGCCATAATTCAACTTCTTG
GTGTCATTTTTGCATGTGCACTGTCACGAGCATTCCGTGAAAATTATGAGACAGTTTAAA
TGCATTTATTTTTTTATTACACGTACATGAGCCATGATCATCAAAATTATTATTACTAGT
AGATTTAATATTGTCATAAAGCAACAGCATTAGAGCTTACAAAGAAAACATTCCTGACAA
TCTCATCGCGGATTGAATTAGAAAATTTATCGAGTCATATTATGTTGCTGAGGCTATTAT
ATCATTAAAATTCTTTTGAATCTCTTTCCTATAGTATTCAGTAGCAATGTGTTGAAGTAG
TGATATTAAAAACAATATAAAAGGAAGAAAATGCTGATTGACTTGACTTTATGTTAGAAT
TTAAAAAAGTTCGTTTGAATTTATTAGAGAGTGCAAAGCAAAAAAAAAGTTCAAAAGAAA
TTTAAAGCCAAAATAAAAAAGACATAGATGGTAAAATCAGTGGGGATAAAATTAGCGAGA
GAGTTCCTTCATATCAAAAACAATATTTTTTAATGCAAAAATGCTCTTTACGAGTCTGAA
GTCTTTTCTCAGCATCTTTTGATTACCTAAAGGTATTTACTCACATAAATTCATCTACCT
ATGTAATAATCTCTCTCTCATTCTCTTTAAATATAATACTGAAGATAATAATGAACAAAA
AAATCTCTATCTAAGGCCAATGGATTTAATACTAGATTTTGTGGAATATAAAAATAAGAA
GTAGTCGCTAAGCGATATATATTGATCTCCCTTCCTCTCTCCCAAATGTTATGTGTTCAA
AAATTTTTCCAAATTTTATTTTCATACCTATTTATTATATGTAAGAGAAAACTCATTTTA
TTTCTTGATTAAAATTTCAATTCATGTATAGTAGTTTTCCGTAGTAATGTGTCTTTTTAA
CTCAAAAAAAGAATCTAACTTCAAGAGAAAAAAAAAGTATGTCGCGATGCAGACAGCAAA
GCTTACGTCCAATAAAAAAATATTTAGAAATGTGAAGAGACATTAAATTTAAATGTATAA
GAAAGAAATATTGACTATGTATTACTAACTTCCTAAATGTGAAAATGTAAAACGAAGAAA
AATTAATAATTAATGAAAGTGCAAAATGAGAAAAACAATTTTTGAATGGTATTTTAAATA
TGAGAAATTTATTGATGAAACGATAAAAAAGAAGAACATTTACAATAGAATTCAAATTTA
AATTTTATCATGTTTGAAAAAGCCAAGTTTGAGAAGTTTTTTTTCTTCCTTTTTTGAATA
AAAAA

>g4999.t4 Gene=g4999 Length=235
MAKGFGINCIKYLVFFFNFLFAMTGLLTIIVGAIIQSSYHHYENFIGESFWSAPIILMIV
GSLIFFISFLGCCGALRESSCLILTFSVFLLFVFITEIGIGVAGYIKHAELPGILERQFN
RTLDDYTTSIEAQQAWSLVQGELQCCGIYGPLDWKPIFKNKTVPSTCCHILPVNVKNCEV
KYSSEEGCYQKLLDFLDTKSLLLGGVGVGIAIIQLLGVIFACALSRAFRENYETV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
20 g4999.t4 CDD cd03127 tetraspanin_LEL 105 199 6.57369E-18
9 g4999.t4 Gene3D G3DSA:1.10.1450.10 Tetraspanin 110 198 2.9E-10
2 g4999.t4 PANTHER PTHR19282:SF273 TETRASPANIN 6 231 4.9E-49
3 g4999.t4 PANTHER PTHR19282 TETRASPANIN 6 231 4.9E-49
19 g4999.t4 PIRSF PIRSF002419 Tetraspanin 1 234 2.8E-49
7 g4999.t4 PRINTS PR00259 Transmembrane four family signature 12 35 8.0E-41
4 g4999.t4 PRINTS PR00259 Transmembrane four family signature 50 76 8.0E-41
6 g4999.t4 PRINTS PR00259 Transmembrane four family signature 77 105 8.0E-41
5 g4999.t4 PRINTS PR00259 Transmembrane four family signature 202 228 8.0E-41
1 g4999.t4 Pfam PF00335 Tetraspanin family 10 226 5.9E-52
10 g4999.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
18 g4999.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 35 -
13 g4999.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 36 54 -
17 g4999.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 55 76 -
12 g4999.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 77 82 -
15 g4999.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 83 106 -
14 g4999.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 107 200 -
16 g4999.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 201 224 -
11 g4999.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 225 235 -
25 g4999.t4 ProSitePatterns PS00421 Transmembrane 4 family signature. 61 83 -
8 g4999.t4 SUPERFAMILY SSF48652 Tetraspanin 106 199 7.72E-15
22 g4999.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 13 35 -
21 g4999.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 50 72 -
23 g4999.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 84 106 -
24 g4999.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 202 224 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0016021 integral component of membrane CC

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.

Raw TPM values