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.t26 isoform g8185.t26 28961709 28963602
chr_2 g8185 g8185.t26 exon g8185.t26.exon1 28961709 28962247
chr_2 g8185 g8185.t26 TTS g8185.t26 28961757 28961757
chr_2 g8185 g8185.t26 cds g8185.t26.CDS1 28962204 28962247
chr_2 g8185 g8185.t26 exon g8185.t26.exon2 28962309 28962580
chr_2 g8185 g8185.t26 cds g8185.t26.CDS2 28962309 28962580
chr_2 g8185 g8185.t26 exon g8185.t26.exon3 28962756 28962952
chr_2 g8185 g8185.t26 cds g8185.t26.CDS3 28962756 28962952
chr_2 g8185 g8185.t26 exon g8185.t26.exon4 28963537 28963602
chr_2 g8185 g8185.t26 cds g8185.t26.CDS4 28963537 28963602
chr_2 g8185 g8185.t26 TSS g8185.t26 28963786 28963786

Sequences

>g8185.t26 Gene=g8185 Length=1074
ATGGGTTTAACTTGTGGAGCATCTGTGGTCAAATATGGCATTTTTATTTTCAACCTTCTT
TGTGCTGTTGCTGGTATAGCATTGATCGTTGTTGGTGCAATTCCACTATTCAAACTTGAT
GACATTCGAGATGCCTTTCCTGAAAACAATCCAGCCACTGTTCCCATCATAATCGTCGTT
CTTGGCTCGATAATCTTTATCATCAGTTTCTTTGGATGTTGTGGAGCTATTAGAGAAAAT
CAGTGTATGGTTTCAACGGTACGAGACACAAATAATGAAACAAGAATTGCTATCGAAGGC
ATACAACGCGGACTTCGCTGTTGTGGTTCAGCTGGACCCGCTGATTGGGGATTATTAAAT
ATTCCATCTTCATGCTGTGATGATGGAGTTATAGCATGCACAGTGTCGAACGCTCATTCA
GATGGATGTGCTACACTTCTTTCCAACTTTGTCAATGATAGTGGACTCTTGATTGCATGG
TTTGCAATTGTCTTTGCTGGTATTGAACTTGTTGGTGTAATCTTCGCCTGTTGTCTGGCC
AATTCAATTCGAAATGCAAACAGAAGACAATATGCATAAAAGTCTACAATGTACTAATTT
AATAGAAATAGGAATTTGAAACCAAATTTTTTTTGTTTAAAAATCTATTCTTATATATCT
CTAATTAATTTTATAGTACAGCTATAGATTGATGTCAAGAAAATAAGTTTTTTTTTCACT
TATTTATCGCTATTAATTGATAAGTAAGTTGAATACATATGTGTGTGTGTCACCATTTCT
TTGGTCTATCATCTATATCAATTCTAATTTATCAATCTTAAGTTTCTGTGTGAGCTAGGC
ACGGCAGATAAGGGTCACTTCTATATATGCAAGAGAAAAGAAAACACGCCAACAAGAAAT
ATTTTATTTTTATTTTAGTCTTTTAAAATATGTTATCGTAAAAATTGTATATTTTTTATT
CTTTAAATGTTGTACTTTGAACACAAGTTGTTAATAAACAAAGTAAAAGTGATTAGTTCT
TGAATAAATGCTTTAAATATCAACAATTCAAAATTTAATGGTAAATAATAATTT

>g8185.t26 Gene=g8185 Length=192
MGLTCGASVVKYGIFIFNLLCAVAGIALIVVGAIPLFKLDDIRDAFPENNPATVPIIIVV
LGSIIFIISFFGCCGAIRENQCMVSTVRDTNNETRIAIEGIQRGLRCCGSAGPADWGLLN
IPSSCCDDGVIACTVSNAHSDGCATLLSNFVNDSGLLIAWFAIVFAGIELVGVIFACCLA
NSIRNANRRQYA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
20 g8185.t26 CDD cd03127 tetraspanin_LEL 90 153 5.63855E-13
10 g8185.t26 Gene3D G3DSA:1.10.1450.10 Tetraspanin 78 152 5.9E-11
4 g8185.t26 PANTHER PTHR19282 TETRASPANIN 6 86 7.2E-29
6 g8185.t26 PANTHER PTHR19282:SF471 CD63 ANTIGEN 6 86 7.2E-29
3 g8185.t26 PANTHER PTHR19282 TETRASPANIN 90 186 7.2E-29
5 g8185.t26 PANTHER PTHR19282:SF471 CD63 ANTIGEN 90 186 7.2E-29
18 g8185.t26 PIRSF PIRSF002419 Tetraspanin 1 88 2.0E-17
19 g8185.t26 PIRSF PIRSF002419 Tetraspanin 83 192 8.3E-19
8 g8185.t26 PRINTS PR00259 Transmembrane four family signature 12 35 1.5E-10
7 g8185.t26 PRINTS PR00259 Transmembrane four family signature 51 77 1.5E-10
2 g8185.t26 Pfam PF00335 Tetraspanin family 10 85 1.1E-17
1 g8185.t26 Pfam PF00335 Tetraspanin family 89 181 3.0E-14
13 g8185.t26 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 11 -
15 g8185.t26 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 36 -
12 g8185.t26 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 37 55 -
17 g8185.t26 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 56 78 -
14 g8185.t26 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 79 156 -
16 g8185.t26 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 157 180 -
11 g8185.t26 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 181 192 -
24 g8185.t26 ProSitePatterns PS00421 Transmembrane 4 family signature. 62 84 -
9 g8185.t26 SUPERFAMILY SSF48652 Tetraspanin 88 153 5.36E-12
23 g8185.t26 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 15 37 -
22 g8185.t26 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 50 72 -
21 g8185.t26 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 157 179 -

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