Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Longitudinals lacking protein, isoform G.

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_1 g11446 g11446.t2 isoform g11446.t2 16308257 16310362
chr_1 g11446 g11446.t2 exon g11446.t2.exon1 16308257 16308824
chr_1 g11446 g11446.t2 TTS g11446.t2 16308298 16308298
chr_1 g11446 g11446.t2 cds g11446.t2.CDS1 16308614 16308824
chr_1 g11446 g11446.t2 exon g11446.t2.exon2 16308882 16308960
chr_1 g11446 g11446.t2 cds g11446.t2.CDS2 16308882 16308960
chr_1 g11446 g11446.t2 exon g11446.t2.exon3 16309014 16309367
chr_1 g11446 g11446.t2 cds g11446.t2.CDS3 16309014 16309367
chr_1 g11446 g11446.t2 exon g11446.t2.exon4 16309430 16309627
chr_1 g11446 g11446.t2 cds g11446.t2.CDS4 16309430 16309627
chr_1 g11446 g11446.t2 exon g11446.t2.exon5 16309682 16309877
chr_1 g11446 g11446.t2 cds g11446.t2.CDS5 16309682 16309877
chr_1 g11446 g11446.t2 exon g11446.t2.exon6 16309934 16310074
chr_1 g11446 g11446.t2 cds g11446.t2.CDS6 16309934 16310074
chr_1 g11446 g11446.t2 exon g11446.t2.exon7 16310137 16310214
chr_1 g11446 g11446.t2 cds g11446.t2.CDS7 16310137 16310214
chr_1 g11446 g11446.t2 exon g11446.t2.exon8 16310300 16310362
chr_1 g11446 g11446.t2 cds g11446.t2.CDS8 16310300 16310362
chr_1 g11446 g11446.t2 TSS g11446.t2 16310394 16310394

Sequences

>g11446.t2 Gene=g11446 Length=1677
ATGCAGCAATTTCAAATCAAGTGGAATAATCATTTAAAAATATTTAGTAAAGCACTCTCA
AAGTTTTTTGAAGACAAGAAATTCTTAGATGTGATTTTGGTAGTTGAAAATGGAAATCAT
ATAATTCAATGTCATAAAATGGTATTAGCAGCATGCTCGACCTATTTTGCCAATATTTTC
AAATGTAATCTGCTAGACGATAAAAATCCAGTCATTTGTTTACCCAGTGAGATACAATTA
TGGGAAATTCAAGCTATTCTTAATTACATGTATAATGGAGAGGTATGCATTTCACAAGAC
GGACTAAAGAGTTTAGTAAAATGTGCTGAACTTTTGCAAGTTAAAGGCTTGTGGCGGAAT
GAAAAAATTGATAATGTGAACGTCACATCTACCTCTACTTCAACCTCTACTGTCAACGAG
AACACTAATGAGCTACCAAATTATTCGGATATGATTATTAAAACTGAAATTGATATAGAT
GATATAGAAAATCAGAAGACTGGTTATTACACTCACACATTTGAAAAAGGGAGTGTTGAA
AATACCACCAATAATGAAACAAATGGGGAGTTTTCGAATTCTCAACTTATGAGGAAAGAG
ACTGAAAAAAATTTGGAACGAACAAAGAAGAGCCTTCATAAAAAAGACACTGCTGTGACA
AAAAACAACTCTAATGCTATCAACTGTCAAAAACAATTTGAGAACATTATTTGTTCACCT
ATTCTATATTGGCGTGAGCAGCATGATAAAGAAATTAACGAGAAAAAAGAAATGGTAGAT
AGTCAGCAAGAAAGAAAGCCAGAAGATGAAATTGAAAAAGTGGAGGAAAATGATGACGAT
GAAGAGGAGAATGAATTAGATGAGAATAGCAGTCAACATCAGATATTGTTTTCAAATGAA
ATGATGATAGATAATGATGATGAATGTAATTTGTTAATTGCATCAGTTAGTGGTATGAGT
GAGGAATCACAGCAGTTTTCAGATGATAAAAAATCATCAATTAATGGATTATATTTAAGA
AATCCTCGAGGTAATCAAACTAGACAATACGATGTGAATTCGTTATATCTAGCTCTTGAA
GATGTTAGAAATGGAATCAGTATTTATCGAGCTGCCCAGAGTCACCACGTTCCCCGTAAA
ACATTGAGAAACTGGATGAAGCGATTACATATAAAGTCAAAATTTCCGATGCCAAAACAA
TTAGCCAAAGCTGCTGAGCGAAAAAAATCCGTTCAAATGCATACTACGGTAAAAAGCGAA
ATGAATTTTCAAAATTTTAACACTACAACTATTGATGAAAGTATGATAGAGAAATTTTAA
AATGCATGATTTTTTATGAATGAATTTAAATTTTTATTTTATTGCTTAAGTAAAAGAAAA
CACATTTTCTATCTAGTCAAAAATTTTTCATTGGCGTATCATACAATTTAATTTTTGAAT
AAAATGAAGAATTGTGATTCATCGTCATCTATGATATATTAAATAATTTTTTAAAAAGTT
CTCATTTTTTAAATGTAACAAGTTTTATATTAATTTAATAATATAATTTTTAACTACCTA
GTCATTTATCTTTAAGAAAAGAATCAGTGTGCAAGAGTATTATTAATAAAAACGTATTGA
TGAAGATTTACAACGTAAAAACTTATTTTTACTCTAATTTTATTTTTTCATTGCAGT

>g11446.t2 Gene=g11446 Length=439
MQQFQIKWNNHLKIFSKALSKFFEDKKFLDVILVVENGNHIIQCHKMVLAACSTYFANIF
KCNLLDDKNPVICLPSEIQLWEIQAILNYMYNGEVCISQDGLKSLVKCAELLQVKGLWRN
EKIDNVNVTSTSTSTSTVNENTNELPNYSDMIIKTEIDIDDIENQKTGYYTHTFEKGSVE
NTTNNETNGEFSNSQLMRKETEKNLERTKKSLHKKDTAVTKNNSNAINCQKQFENIICSP
ILYWREQHDKEINEKKEMVDSQQERKPEDEIEKVEENDDDEEENELDENSSQHQILFSNE
MMIDNDDECNLLIASVSGMSEESQQFSDDKKSSINGLYLRNPRGNQTRQYDVNSLYLALE
DVRNGISIYRAAQSHHVPRKTLRNWMKRLHIKSKFPMPKQLAKAAERKKSVQMHTTVKSE
MNFQNFNTTTIDESMIEKF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g11446.t2 CDD cd18315 BTB_POZ_BAB-like 28 116 7.06459E-24
7 g11446.t2 Coils Coil Coil 245 265 -
6 g11446.t2 Gene3D G3DSA:3.30.710.10 Potassium Channel Kv1.1; Chain A 2 120 5.0E-26
10 g11446.t2 MobiDBLite mobidb-lite consensus disorder prediction 256 293 -
12 g11446.t2 MobiDBLite mobidb-lite consensus disorder prediction 256 272 -
11 g11446.t2 MobiDBLite mobidb-lite consensus disorder prediction 273 287 -
3 g11446.t2 PANTHER PTHR23110 BTB DOMAIN TRANSCRIPTION FACTOR 2 135 2.3E-39
2 g11446.t2 Pfam PF00651 BTB/POZ domain 20 119 3.7E-19
1 g11446.t2 Pfam PF05225 helix-turn-helix, Psq domain 355 390 1.0E-5
13 g11446.t2 ProSiteProfiles PS50097 BTB domain profile. 29 99 18.162
9 g11446.t2 SMART SM00225 BTB_4 29 129 1.1E-13
4 g11446.t2 SUPERFAMILY SSF54695 POZ domain 5 119 3.45E-25
5 g11446.t2 SUPERFAMILY SSF46689 Homeodomain-like 345 401 2.33E-10

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:0003677 DNA binding MF
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