Gene loci information

Transcript annotation

  • This transcript has been annotated as THO complex subunit 6.

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 g7465 g7465.t1 TTS g7465.t1 23890333 23890333
chr_2 g7465 g7465.t1 isoform g7465.t1 23890525 23891659
chr_2 g7465 g7465.t1 exon g7465.t1.exon1 23890525 23890881
chr_2 g7465 g7465.t1 cds g7465.t1.CDS1 23890525 23890881
chr_2 g7465 g7465.t1 exon g7465.t1.exon2 23890946 23891492
chr_2 g7465 g7465.t1 cds g7465.t1.CDS2 23890946 23891492
chr_2 g7465 g7465.t1 exon g7465.t1.exon3 23891547 23891659
chr_2 g7465 g7465.t1 cds g7465.t1.CDS3 23891547 23891659
chr_2 g7465 g7465.t1 TSS g7465.t1 23891713 23891713

Sequences

>g7465.t1 Gene=g7465 Length=1017
ATGAAAGAAAATACGCTTAGAATCTTATATAATGTAATAACAGATCAAACTATATCATCT
AATGGTCGTTTTCTATATGCGTGCAGCAATTATGGAGATATAGCTATTTACAATATAGAG
AAAATTACAAATTGTGTTCAGAATATAACCAGTGAAAATATATCAGATCCTATATTTGTA
TTCAAGAATCAATTTGATGATCAAAAGCCACTCTCATTAGCTTTTCATCGTGATTTTCTT
ATTGTCGGCAATACAAATTCATCAGTTTTTGGATATGAAGTAAACAATTCGACTGGAATT
ATAGGAAACTTATCATGGAAAATACAACTTGCGCCAGAGATTAGTGAAGATGTAAACGAT
CTGTGGATTGATACGGAAAATGAAACTTTGTATGCAGCATGTGGCAATGATGTTTTTCAA
ATATCGCTTGAAGATGGTCGAATAATACACAAGTTTGAAGGTCACAAGGACTATATTCAT
TCTGTTAATGGTTTTGGAAATAATTTTGTAACTGGTAGTGAGGATGGCACTGTAAAATTA
TGGGATCATCGTCAAAAGAAAGCAACAAATTCACTTGAGCCTAGTAAAAATCCAAATTTA
GTTCAAAAAACTGATGGCAAGCTTTCATTAAGTTGGATAGGAAGTGCATGTATAACAAAG
GAATGGATGGCTTTCGGTGGTGGTGGAACAAAGCTCGCATTGTTTCATATCACTCAACTA
AATTATCGTACACCTTTTCACATCTTTGAAGAATTTACATCGCCTATTCATGTAACTGAA
TTTGTTGATGATAATATACTCTGTGCTGGAGAATCAAAAAGTGTCATGCAATTTTCATTA
AAAGGCAATATGGTAAGTGAAATTGAAACATCAGGCCCAGCAATCTATTCTGTAGTATGG
CAAAAGCAACCCAATAAATTTCTTTCATTATCTGGTGCAAGTAATAAAATTGATGTATCC
ACAAATTTCACATATAAAGACACTGCACTCAACTTTTACAAGAAAGACAAGAATTAA

>g7465.t1 Gene=g7465 Length=338
MKENTLRILYNVITDQTISSNGRFLYACSNYGDIAIYNIEKITNCVQNITSENISDPIFV
FKNQFDDQKPLSLAFHRDFLIVGNTNSSVFGYEVNNSTGIIGNLSWKIQLAPEISEDVND
LWIDTENETLYAACGNDVFQISLEDGRIIHKFEGHKDYIHSVNGFGNNFVTGSEDGTVKL
WDHRQKKATNSLEPSKNPNLVQKTDGKLSLSWIGSACITKEWMAFGGGGTKLALFHITQL
NYRTPFHIFEEFTSPIHVTEFVDDNILCAGESKSVMQFSLKGNMVSEIETSGPAIYSVVW
QKQPNKFLSLSGASNKIDVSTNFTYKDTALNFYKKDKN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g7465.t1 Gene3D G3DSA:2.130.10.10 - 11 328 0.0000e+00
2 g7465.t1 PANTHER PTHR44411 THO COMPLEX SUBUNIT 6 HOMOLOG 6 332 0.0000e+00
1 g7465.t1 Pfam PF00400 WD domain, G-beta repeat 147 182 1.1000e-06
8 g7465.t1 ProSiteProfiles PS50294 Trp-Asp (WD) repeats circular profile. 152 191 1.1445e+01
9 g7465.t1 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 152 191 1.2146e+01
4 g7465.t1 SMART SM00320 WD40_4 2 38 3.3000e+02
5 g7465.t1 SMART SM00320 WD40_4 145 182 2.4000e-06
6 g7465.t1 SMART SM00320 WD40_4 242 279 3.2000e+02
3 g7465.t1 SUPERFAMILY SSF50978 WD40 repeat-like 10 314 0.0000e+00

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:0005515 protein binding MF

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