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 g5515 g5515.t5 TTS g5515.t5 10027731 10027731
chr_2 g5515 g5515.t5 isoform g5515.t5 10027974 10029024
chr_2 g5515 g5515.t5 exon g5515.t5.exon1 10027974 10028194
chr_2 g5515 g5515.t5 exon g5515.t5.exon2 10028251 10028360
chr_2 g5515 g5515.t5 cds g5515.t5.CDS1 10028350 10028360
chr_2 g5515 g5515.t5 exon g5515.t5.exon3 10028429 10028579
chr_2 g5515 g5515.t5 cds g5515.t5.CDS2 10028429 10028579
chr_2 g5515 g5515.t5 exon g5515.t5.exon4 10028655 10028792
chr_2 g5515 g5515.t5 cds g5515.t5.CDS3 10028655 10028792
chr_2 g5515 g5515.t5 exon g5515.t5.exon5 10028902 10029024
chr_2 g5515 g5515.t5 cds g5515.t5.CDS4 10028902 10029024
chr_2 g5515 g5515.t5 TSS g5515.t5 10029368 10029368

Sequences

>g5515.t5 Gene=g5515 Length=743
ATGGATCCTATTGAAGAAAACTCTTCAAATATTGAAACTTCTGTTTCATCTGCAACATCA
GGAACCACAAATATTGTCCATCATCTAATTCCGCCATCACAAGTGAATCCTTCAGCACAT
CAAGCCCACGTTCAATCTTCATCTGTAATACAACCAAATCAACAATCAGTTATAACCGCT
ACTGGAGTGCAACTTGTAAAAAGTGTTTTGCTGGTGAATAGTAAACCAAATTCTGTCATT
CATACGACTCAAGCTATTCAAATAAAACCTGAACCAAATATTGGTCATATGATAACTTCA
GATGATTCTGACGACTATTCTGATGATGATTCTCCAAAAAAGCGTAGAGATTTATTGACG
AGACGTCCTTCATATCGAAAAATTTTAAATGACCTCGGAGGAGGTGAAATGGAACAATAT
TGACACAAGCTGGAAATCCAAATGATCATGCGATTCATGGTGGAAGTACGATTGTACAAT
ATAATAATCAGGATGGATCAGGTTTGGTGTCATATGTCCCTGTAAATTTGGTTGGAAATA
ATGTGATAGCAGAAGACCAGTCCAGAAAACGTGAGATGAGGTTACTTAAAAATAGAGAAG
CAGCTCGAGAATGTCGTCGAAAAAAGAAGGAATACATAAAGTGCCTGGAAAATAGAGTAG
CAGTACTTGAAAATCAAAATAAGGCATTAATCGAAGAGTTAAAGAGTTTAAAAGAGTTAT
ATTGTCAACAGAAGAATGATTGA

>g5515.t5 Gene=g5515 Length=140
MDPIEENSSNIETSVSSATSGTTNIVHHLIPPSQVNPSAHQAHVQSSSVIQPNQQSVITA
TGVQLVKSVLLVNSKPNSVIHTTQAIQIKPEPNIGHMITSDDSDDYSDDDSPKKRRDLLT
RRPSYRKILNDLGGGEMEQY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
4 g5515.t5 MobiDBLite mobidb-lite consensus disorder prediction 1 20 -
6 g5515.t5 MobiDBLite mobidb-lite consensus disorder prediction 91 122 -
5 g5515.t5 MobiDBLite mobidb-lite consensus disorder prediction 107 122 -
2 g5515.t5 PANTHER PTHR45879:SF3 CYCLIC AMP RESPONSE ELEMENT-BINDING PROTEIN B 12 137 1.5E-14
3 g5515.t5 PANTHER PTHR45879 CYCLIC AMP RESPONSE ELEMENT-BINDING PROTEIN B 12 137 1.5E-14
1 g5515.t5 Pfam PF02173 pKID domain 108 136 4.9E-15
7 g5515.t5 ProSiteProfiles PS50953 KID domain profile. 92 140 13.382

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5515/g5515.t5; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5515.t5.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0005634 nucleus CC
GO:0003677 DNA binding MF
GO:0005515 protein binding MF
GO:0006355 regulation of transcription, DNA-templated BP
GO:0003700 DNA-binding transcription factor activity 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