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_3 g872 g872.t1 TSS g872.t1 6607812 6607812
chr_3 g872 g872.t1 isoform g872.t1 6608072 6609244
chr_3 g872 g872.t1 exon g872.t1.exon1 6608072 6609244
chr_3 g872 g872.t1 cds g872.t1.CDS1 6608072 6609244
chr_3 g872 g872.t1 TTS g872.t1 6609267 6609267

Sequences

>g872.t1 Gene=g872 Length=1173
ATGACTCAACAAGTACATTGCAAATTCGAAAATTCCACTTGGACATTTTTGGGAAATTGT
TATGTTTGCATTATAAAAGACCAAATATTAATTGAAAGTAAAAGAATAGTAGTAAAAGGA
AAACACCTTGTAGGAAAATCAAACAAAGATGTTACCGCAGTTTCTTTAAATGGCTGTAAA
TTATGGGAATTTCCGCAAGGTTTAAACAAAATGTTTCGCAATATGCAAGCTATTCATATT
TTTCAAACAAATTTGTCACGAATATCACGAGAAGATTTAGAAGAATACAAAACACTCATT
CATTTACATATTGGTTATAATGAAATATTATTTTTGCAAGAAGATTTACTCACTGATATG
AAGTCATTACAATTTTTTTCAGTTTATGAAAAAAACTTGCTTGTAATTCAACCAAATATT
TTTAATGATTTGAAAAGACTTAAATACATAGATTTTCGTCAATGCAATCTTGTCAATTTT
TTATACAATTCAGATGGTTTAGGTGATTGCAAAAGTTTGGAAGAAGTAAAAAAGAAACTC
GAGGAAAAATATCAAGATTTACCATGGAAAAACTTTTTTGAGAAGATGCAAAAATTAGAA
AAAGATTCAGAGTTGCTAAAAGACCTTAAAAATGAATTGTACAAAGAAAATTTGAAAGAT
TTCAAAGTCATCGTTGATAAAGAAGAATTCAACACTCACAAAATTGTATTGGCAGCTCGC
AGTCCAGTTTTCACTGAAATGATCGAAAACAATCCTGATGCAGAAAGCTTGAATTTGGTT
GACGTTTCACCTGCAATATTCCATGAAATTTATAATTTTATGTATACAAATGAATTTCCA
AATTTTGCAGATATCAACTTGGTTCATTTGTTGATTGCAAGTGAAAAATTAAAAATTAAA
AAATTGTCAAAATTTGCAGCAAATAAGTTACTTAATAATATTACTAATGAAAATTCATTT
GAGTTAATGACTTTGGGAAAGAAATATGATTATATAGAACTTCAGGAAAAGGCGTTTGCT
AAAATTAAAGAATTCTTCAATGATGAGCAAATTGATGAAGCATTAGTAAACAAACCTGAG
AAGTTGAAGAAATTGATTGACATTAAAAAAGAGAAAATTCGTTGTTTAGCTGAATTGGAA
GAGAAATTCAAATCTGTATTGAATGAAGATTGA

>g872.t1 Gene=g872 Length=390
MTQQVHCKFENSTWTFLGNCYVCIIKDQILIESKRIVVKGKHLVGKSNKDVTAVSLNGCK
LWEFPQGLNKMFRNMQAIHIFQTNLSRISREDLEEYKTLIHLHIGYNEILFLQEDLLTDM
KSLQFFSVYEKNLLVIQPNIFNDLKRLKYIDFRQCNLVNFLYNSDGLGDCKSLEEVKKKL
EEKYQDLPWKNFFEKMQKLEKDSELLKDLKNELYKENLKDFKVIVDKEEFNTHKIVLAAR
SPVFTEMIENNPDAESLNLVDVSPAIFHEIYNFMYTNEFPNFADINLVHLLIASEKLKIK
KLSKFAANKLLNNITNENSFELMTLGKKYDYIELQEKAFAKIKEFFNDEQIDEALVNKPE
KLKKLIDIKKEKIRCLAELEEKFKSVLNED

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g872.t1 CDD cd18186 BTB_POZ_ZBTB_KLHL-like 220 297 6.61035E-17
9 g872.t1 Coils Coil Coil 196 216 -
8 g872.t1 Coils Coil Coil 362 390 -
6 g872.t1 Gene3D G3DSA:3.80.10.10 Ribonuclease Inhibitor 31 196 1.2E-13
7 g872.t1 Gene3D G3DSA:3.30.710.10 Potassium Channel Kv1.1; Chain A 197 345 3.4E-27
2 g872.t1 PANTHER PTHR24413:SF213 FI01029P-RELATED 188 344 5.3E-20
3 g872.t1 PANTHER PTHR24413 SPECKLE-TYPE POZ PROTEIN 188 344 5.3E-20
1 g872.t1 Pfam PF00651 BTB/POZ domain 214 312 1.3E-18
12 g872.t1 ProSiteProfiles PS50097 BTB domain profile. 219 278 15.618
11 g872.t1 SMART SM00225 BTB_4 219 314 3.5E-19
4 g872.t1 SUPERFAMILY SSF52058 L domain-like 50 173 7.23E-14
5 g872.t1 SUPERFAMILY SSF54695 POZ domain 203 314 7.22E-21

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

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