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 g5311 g5311.t2 TSS g5311.t2 8658466 8658466
chr_2 g5311 g5311.t2 isoform g5311.t2 8659119 8659744
chr_2 g5311 g5311.t2 exon g5311.t2.exon1 8659119 8659128
chr_2 g5311 g5311.t2 exon g5311.t2.exon2 8659187 8659297
chr_2 g5311 g5311.t2 cds g5311.t2.CDS1 8659262 8659297
chr_2 g5311 g5311.t2 exon g5311.t2.exon3 8659406 8659744
chr_2 g5311 g5311.t2 cds g5311.t2.CDS2 8659406 8659744
chr_2 g5311 g5311.t2 TTS g5311.t2 8659818 8659818

Sequences

>g5311.t2 Gene=g5311 Length=460
AACTCTAAAGAAAACTAATAATAATGACACAAATGTAGGAACCTCAAATACAAATTTATA
TGATATCACAATTGCCAAAAAACTTATGACGATCGTAATAATTTTTTTGCTTTGTTGGAT
TCCTCTTCATATCATCAACATTACTACATCATTAAACCCAAACATTGTCATTGAACATTA
TGTGATACAACTGGCTATCCTTGCTCATCATTTTTCAGTTGCATTAAATCCAGTTCTCTA
TGCATTCCGAATTGAAGAAGTTCGTGAAACCGTTTTGAAAATTTTCAAGAAAAAAAGAGG
AAAATTTTATTCAATTCCACAAAATGAATCCACAATGCAAAGCCAAAAGTTGGACAGAAA
AGATATTTTAGGAAAATTTCAGTCCGATTGGGAATCAGTTCCAAAACCTTCTGATGTTCT
TTCTTCTGAATTATCTGAATCTGGGAGAATGCCAATTTGA

>g5311.t2 Gene=g5311 Length=124
MTIVIIFLLCWIPLHIINITTSLNPNIVIEHYVIQLAILAHHFSVALNPVLYAFRIEEVR
ETVLKIFKKKRGKFYSIPQNESTMQSQKLDRKDILGKFQSDWESVPKPSDVLSSELSESG
RMPI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g5311.t2 Gene3D G3DSA:1.20.1070.10 - 1 91 1.6E-15
4 g5311.t2 MobiDBLite mobidb-lite consensus disorder prediction 104 124 -
1 g5311.t2 PANTHER PTHR24246:SF23 SI:CH211-233F11.5 3 94 2.5E-13
2 g5311.t2 PANTHER PTHR24246 OLFACTORY RECEPTOR AND ADENOSINE RECEPTOR 3 94 2.5E-13
10 g5311.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 22 -
11 g5311.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
12 g5311.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 14 -
14 g5311.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 15 22 -
9 g5311.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 23 31 -
13 g5311.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 32 54 -
8 g5311.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 55 124 -
7 g5311.t2 ProSiteProfiles PS50262 G-protein coupled receptors family 1 profile. 1 52 12.508
3 g5311.t2 SUPERFAMILY SSF81321 Family A G protein-coupled receptor-like 2 83 2.75E-16
5 g5311.t2 SignalP_EUK SignalP-noTM SignalP-noTM 1 22 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5311/g5311.t2; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5311.t2.fa.iupred3.txt does not exist

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.

Raw TPM values