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 g5347 g5347.t1 TTS g5347.t1 9067654 9067654
chr_2 g5347 g5347.t1 isoform g5347.t1 9068179 9069330
chr_2 g5347 g5347.t1 exon g5347.t1.exon1 9068179 9068891
chr_2 g5347 g5347.t1 cds g5347.t1.CDS1 9068179 9068891
chr_2 g5347 g5347.t1 exon g5347.t1.exon2 9068943 9069330
chr_2 g5347 g5347.t1 cds g5347.t1.CDS2 9068943 9069330
chr_2 g5347 g5347.t1 TSS g5347.t1 9069401 9069401

Sequences

>g5347.t1 Gene=g5347 Length=1101
ATGGTTCAATATATTAAATGCATTTACAATAATAAAGAATGGAATATTCGTAAGCCAAAT
TATACTTGTAGAATATATGAACAAGTCATTTTTGATAACAAAAAGATAAATTTTATTGGT
GCACATGGAAAAGACAAATCCAATCAAGATGTCGATTCTATTTTATTCCAAAATTGCAAG
TTTCAAAGATTTCCACGAGGTCTTATTCAAGTTTTCCCGAATTTGAAATACCTTAATATA
TCATTCTCTCAACTTACGTATATCGAGCGCAATGATTTAAAGGAATATGCACAACTTACT
GATCTATATTTGCATAAAAATCAACTTGTATATTTATCAGAAGACTTATTTGCAGACATG
CCAAATTTGGAAGTAATTTGGCTTCAAAATAATAATAATTTGCTTATCGAACCTAAAATT
TTCAATAATTTGGTTCATTTAAAAAACTTAAGTCTCTCCAATCAATTCTATTTCAACATA
CTTCCATCTGCTAATCGAGGAAAAATGTCTCTTAATAGAATCAAATATGAATTACAAAAA
ATATATGAAAATTCACCAATGAAGAAATTTTTGGAAGCAAAATTAAAGAACGAATTTTTC
GATGATATCAAGAATGCAATTCGCAATGATGATCTAAAGGATTTCACAATAAATGTTCGA
ACTCGCCAGTTTAAAGGACATAAGTTTATTCTTGCCTCTCGCAGTCAAGTTTTTGCTGAA
ATATTTAAGAATAACAAAGATGCTGATAATCTAAAACTTAATAATGTATCTCCAGAAGTC
TTTCAAATTGTTTTTGATTTCATTTATACAAACGAATTACCAAATTTAGATGAAGACACA
CTTGTACAAATTATAACGATCAGCGAACAACTAAAGATTAAGATATTAACAAAGCATGTT
GAAGAAGAACTTTTGATGATGGTCAACACTGAAAATGTTTCAAAAATGTTGAAACTGAGT
GAAAAATTTAATTTGAAAAAACTAAAGCAGAAAAGTACAAGTGACAGAGAACAAGTCAGA
ATGCTAAACGAAGATACTGAAAAAATGCAGAAGGAATTGATGGCTATCAAGAAAATGCTA
GAAAAGAAAGAAAAAAAATGA

>g5347.t1 Gene=g5347 Length=366
MVQYIKCIYNNKEWNIRKPNYTCRIYEQVIFDNKKINFIGAHGKDKSNQDVDSILFQNCK
FQRFPRGLIQVFPNLKYLNISFSQLTYIERNDLKEYAQLTDLYLHKNQLVYLSEDLFADM
PNLEVIWLQNNNNLLIEPKIFNNLVHLKNLSLSNQFYFNILPSANRGKMSLNRIKYELQK
IYENSPMKKFLEAKLKNEFFDDIKNAIRNDDLKDFTINVRTRQFKGHKFILASRSQVFAE
IFKNNKDADNLKLNNVSPEVFQIVFDFIYTNELPNLDEDTLVQIITISEQLKIKILTKHV
EEELLMMVNTENVSKMLKLSEKFNLKKLKQKSTSDREQVRMLNEDTEKMQKELMAIKKML
EKKEKK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g5347.t1 CDD cd18186 BTB_POZ_ZBTB_KLHL-like 214 291 1.58617E-19
8 g5347.t1 Coils Coil Coil 325 366 -
6 g5347.t1 Gene3D G3DSA:3.80.10.10 Ribonuclease Inhibitor 22 184 1.9E-18
7 g5347.t1 Gene3D G3DSA:3.30.710.10 Potassium Channel Kv1.1; Chain A 185 334 4.0E-29
3 g5347.t1 PANTHER PTHR24410 HL07962P-RELATED 200 341 8.5E-20
1 g5347.t1 Pfam PF13855 Leucine rich repeat 98 154 5.3E-7
2 g5347.t1 Pfam PF00651 BTB/POZ domain 209 304 3.8E-20
11 g5347.t1 ProSiteProfiles PS50097 BTB domain profile. 213 277 15.783
10 g5347.t1 SMART SM00225 BTB_4 213 308 2.0E-18
4 g5347.t1 SUPERFAMILY SSF52058 L domain-like 28 171 5.67E-20
5 g5347.t1 SUPERFAMILY SSF54695 POZ domain 197 304 1.33E-20

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5347/g5347.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5347.t1.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0005515 protein binding MF

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