Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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 g8185 g8185.t28 isoform g8185.t28 28961709 28963602
chr_2 g8185 g8185.t28 exon g8185.t28.exon1 28961709 28962247
chr_2 g8185 g8185.t28 TTS g8185.t28 28961757 28961757
chr_2 g8185 g8185.t28 cds g8185.t28.CDS1 28962204 28962247
chr_2 g8185 g8185.t28 exon g8185.t28.exon2 28962345 28962702
chr_2 g8185 g8185.t28 cds g8185.t28.CDS2 28962345 28962702
chr_2 g8185 g8185.t28 exon g8185.t28.exon3 28962761 28962952
chr_2 g8185 g8185.t28 cds g8185.t28.CDS3 28962761 28962952
chr_2 g8185 g8185.t28 exon g8185.t28.exon4 28963537 28963602
chr_2 g8185 g8185.t28 cds g8185.t28.CDS4 28963537 28963602
chr_2 g8185 g8185.t28 TSS g8185.t28 28963786 28963786

Sequences

>g8185.t28 Gene=g8185 Length=1155
ATGGGTTTAACTTGTGGAGCATCTGTGGTCAAATATGGCATTTTTATTTTCAACCTTCTT
TGTGCTGTTGCTGGTATAGCATTGATCGTTGTTGGTGCAATTCCACTATTCAAACTTGAT
GACATTCGAGATGCCTTTCCTGAAAACAATCCAGCCACTGTTCCCATCATAATCGTCGTT
CTTGGCTCGATAATCTTTATCATCAGTTTCTTTGGATGTTGTGGAGCTATTAGAGAAAAT
CAGTGTATGGTTTCAACGTACGCATTTTTCCTACTCATATTGGTCGTTCTTCAAATTGTT
ATCGCCGTTTTCGCATTTATGTATACAGGTGAACTTGCGAAAGCTGCAGAAAATGGTTTC
AATAAATTATGGGAAAACAGAGACACAAATAATGAAACAAGAATTGCTATCGAAGGCATA
CAACGCGGACTTCGCTGTTGTGGTTCAGCTGGACCCGCTGATTGGGGATTATTAAATATT
CCATCTTCATGCTGTGATGATGGAGTTATAGCATGCACAGTGTCGAACGCTCATTCAGAT
GGATGTGCTACACTTCTTTCCAACTTTGTCAATGATAGTGGACTCTTGATTGCATGGTTT
GCAATTGTCTTTGCTGTGGCCAATTCAATTCGAAATGCAAACAGAAGACAATATGCATAA
AAGTCTACAATGTACTAATTTAATAGAAATAGGAATTTGAAACCAAATTTTTTTTGTTTA
AAAATCTATTCTTATATATCTCTAATTAATTTTATAGTACAGCTATAGATTGATGTCAAG
AAAATAAGTTTTTTTTTCACTTATTTATCGCTATTAATTGATAAGTAAGTTGAATACATA
TGTGTGTGTGTCACCATTTCTTTGGTCTATCATCTATATCAATTCTAATTTATCAATCTT
AAGTTTCTGTGTGAGCTAGGCACGGCAGATAAGGGTCACTTCTATATATGCAAGAGAAAA
GAAAACACGCCAACAAGAAATATTTTATTTTTATTTTAGTCTTTTAAAATATGTTATCGT
AAAAATTGTATATTTTTTATTCTTTAAATGTTGTACTTTGAACACAAGTTGTTAATAAAC
AAAGTAAAAGTGATTAGTTCTTGAATAAATGCTTTAAATATCAACAATTCAAAATTTAAT
GGTAAATAATAATTT

>g8185.t28 Gene=g8185 Length=219
MGLTCGASVVKYGIFIFNLLCAVAGIALIVVGAIPLFKLDDIRDAFPENNPATVPIIIVV
LGSIIFIISFFGCCGAIRENQCMVSTYAFFLLILVVLQIVIAVFAFMYTGELAKAAENGF
NKLWENRDTNNETRIAIEGIQRGLRCCGSAGPADWGLLNIPSSCCDDGVIACTVSNAHSD
GCATLLSNFVNDSGLLIAWFAIVFAVANSIRNANRRQYA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
19 g8185.t28 CDD cd03127 tetraspanin_LEL 106 192 1.16541E-18
8 g8185.t28 Gene3D G3DSA:1.10.1450.10 Tetraspanin 109 191 8.6E-13
2 g8185.t28 PANTHER PTHR19282:SF273 TETRASPANIN 4 179 9.5E-36
3 g8185.t28 PANTHER PTHR19282 TETRASPANIN 4 179 9.5E-36
18 g8185.t28 PIRSF PIRSF002419 Tetraspanin 1 211 2.3E-42
6 g8185.t28 PRINTS PR00259 Transmembrane four family signature 12 35 2.9E-23
5 g8185.t28 PRINTS PR00259 Transmembrane four family signature 51 77 2.9E-23
4 g8185.t28 PRINTS PR00259 Transmembrane four family signature 78 106 2.9E-23
1 g8185.t28 Pfam PF00335 Tetraspanin family 10 206 7.6E-41
9 g8185.t28 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
16 g8185.t28 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 34 -
13 g8185.t28 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 35 53 -
15 g8185.t28 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 54 77 -
10 g8185.t28 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 78 88 -
17 g8185.t28 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 89 108 -
12 g8185.t28 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 109 192 -
14 g8185.t28 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 193 210 -
11 g8185.t28 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 211 219 -
24 g8185.t28 ProSitePatterns PS00421 Transmembrane 4 family signature. 62 84 -
7 g8185.t28 SUPERFAMILY SSF48652 Tetraspanin 106 192 1.83E-15
23 g8185.t28 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 12 34 -
20 g8185.t28 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 54 76 -
22 g8185.t28 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 88 110 -
21 g8185.t28 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 193 210 -

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

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

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. There were no conditions that were differentially expressed