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.t25 isoform g8185.t25 28961709 28963602
chr_2 g8185 g8185.t25 exon g8185.t25.exon1 28961709 28962247
chr_2 g8185 g8185.t25 TTS g8185.t25 28961757 28961757
chr_2 g8185 g8185.t25 cds g8185.t25.CDS1 28962204 28962247
chr_2 g8185 g8185.t25 exon g8185.t25.exon2 28962309 28962702
chr_2 g8185 g8185.t25 cds g8185.t25.CDS2 28962309 28962702
chr_2 g8185 g8185.t25 exon g8185.t25.exon3 28962770 28962952
chr_2 g8185 g8185.t25 cds g8185.t25.CDS3 28962770 28962952
chr_2 g8185 g8185.t25 exon g8185.t25.exon4 28963542 28963602
chr_2 g8185 g8185.t25 cds g8185.t25.CDS4 28963542 28963568
chr_2 g8185 g8185.t25 TSS g8185.t25 28963786 28963786

Sequences

>g8185.t25 Gene=g8185 Length=1177
ATGGGTTTAACTTGTGGAGCATCTGTGGTCAAATATGGCATTTTTATTTTCAACCTTCTT
TGTTGCTGGTATAGCATTGATCGTTGTTGGTGCAATTCCACTATTCAAACTTGATGACAT
TCGAGATGCCTTTCCTGAAAACAATCCAGCCACTGTTCCCATCATAATCGTCGTTCTTGG
CTCGATAATCTTTATCATCAGTTTCTTTGGATGTTGTGGAGCTATTAGAGAAAATCAGTG
TATGTACGCATTTTTCCTACTCATATTGGTCGTTCTTCAAATTGTTATCGCCGTTTTCGC
ATTTATGTATACAGGTGAACTTGCGAAAGCTGCAGAAAATGGTTTCAATAAATTATGGGA
AAACAGAGACACAAATAATGAAACAAGAATTGCTATCGAAGGCATACAACGCGGACTTCG
CTGTTGTGGTTCAGCTGGACCCGCTGATTGGGGATTATTAAATATTCCATCTTCATGCTG
TGATGATGGAGTTATAGCATGCACAGTGTCGAACGCTCATTCAGATGGATGTGCTACACT
TCTTTCCAACTTTGTCAATGATAGTGGACTCTTGATTGCATGGTTTGCAATTGTCTTTGC
TGGTATTGAACTTGTTGGTGTAATCTTCGCCTGTTGTCTGGCCAATTCAATTCGAAATGC
AAACAGAAGACAATATGCATAAAAGTCTACAATGTACTAATTTAATAGAAATAGGAATTT
GAAACCAAATTTTTTTTGTTTAAAAATCTATTCTTATATATCTCTAATTAATTTTATAGT
ACAGCTATAGATTGATGTCAAGAAAATAAGTTTTTTTTTCACTTATTTATCGCTATTAAT
TGATAAGTAAGTTGAATACATATGTGTGTGTGTCACCATTTCTTTGGTCTATCATCTATA
TCAATTCTAATTTATCAATCTTAAGTTTCTGTGTGAGCTAGGCACGGCAGATAAGGGTCA
CTTCTATATATGCAAGAGAAAAGAAAACACGCCAACAAGAAATATTTTATTTTTATTTTA
GTCTTTTAAAATATGTTATCGTAAAAATTGTATATTTTTTATTCTTTAAATGTTGTACTT
TGAACACAAGTTGTTAATAAACAAAGTAAAAGTGATTAGTTCTTGAATAAATGCTTTAAA
TATCAACAATTCAAAATTTAATGGTAAATAATAATTT

>g8185.t25 Gene=g8185 Length=215
MAFLFSTFFVAGIALIVVGAIPLFKLDDIRDAFPENNPATVPIIIVVLGSIIFIISFFGC
CGAIRENQCMYAFFLLILVVLQIVIAVFAFMYTGELAKAAENGFNKLWENRDTNNETRIA
IEGIQRGLRCCGSAGPADWGLLNIPSSCCDDGVIACTVSNAHSDGCATLLSNFVNDSGLL
IAWFAIVFAGIELVGVIFACCLANSIRNANRRQYA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
21 g8185.t25 CDD cd03127 tetraspanin_LEL 90 176 1.23957E-18
8 g8185.t25 Gene3D G3DSA:1.10.1450.10 Tetraspanin 93 175 8.3E-13
2 g8185.t25 PANTHER PTHR19282 TETRASPANIN 3 209 3.7E-36
3 g8185.t25 PANTHER PTHR19282:SF471 CD63 ANTIGEN 3 209 3.7E-36
20 g8185.t25 PIRSF PIRSF002419 Tetraspanin 1 215 4.7E-40
6 g8185.t25 PRINTS PR00259 Transmembrane four family signature 38 64 7.2E-21
4 g8185.t25 PRINTS PR00259 Transmembrane four family signature 65 93 7.2E-21
5 g8185.t25 PRINTS PR00259 Transmembrane four family signature 180 206 7.2E-21
1 g8185.t25 Pfam PF00335 Tetraspanin family 3 204 6.9E-38
13 g8185.t25 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
14 g8185.t25 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
15 g8185.t25 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 15 -
19 g8185.t25 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 16 19 -
11 g8185.t25 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 42 -
18 g8185.t25 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 43 64 -
10 g8185.t25 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 65 70 -
17 g8185.t25 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 71 92 -
12 g8185.t25 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 93 179 -
16 g8185.t25 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 180 203 -
9 g8185.t25 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 204 215 -
7 g8185.t25 SUPERFAMILY SSF48652 Tetraspanin 90 176 1.7E-15
25 g8185.t25 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 2 24 -
24 g8185.t25 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 39 58 -
23 g8185.t25 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 71 93 -
22 g8185.t25 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 180 202 -

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