Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Protein twist.

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 g3210 g3210.t1 TTS g3210.t1 23678456 23678456
chr_3 g3210 g3210.t1 isoform g3210.t1 23678969 23680585
chr_3 g3210 g3210.t1 exon g3210.t1.exon1 23678969 23679185
chr_3 g3210 g3210.t1 cds g3210.t1.CDS1 23678969 23679185
chr_3 g3210 g3210.t1 exon g3210.t1.exon2 23679657 23680585
chr_3 g3210 g3210.t1 cds g3210.t1.CDS2 23679657 23680585
chr_3 g3210 g3210.t1 TSS g3210.t1 23680706 23680706

Sequences

>g3210.t1 Gene=g3210 Length=1146
ATGGCATTATCACCAAAATTAATTCTTGACATAAGTCAATCACAAATGGAAAATTTATCA
TTAAATTGCACAGTGATTAAAGTTGAAAATGCAAGTGATAATGATAGTAATAATAACAGT
CCATTAAGTCAACATCAAAATTATAAAGAAAATGATATAAAATATACAGATTTAGATATG
TCAGTGCCATCAACTGTCAGTTTTTATGAAGCAACAACATCTGTTTCGTCCTCATCCGGA
AATTCCACAAGAAAGCGAAAGGTAGCAAAAAATATTGACGAACATATTGAGCAGAATTCG
GGCATTTCCCAACATTTTCAAGCATGCAGTCCCGTCGATATGGAAAGTGATGCTAAAAGA
TTTCGATTTGATAACGGTAGCTTTGAATCAGCAGCAACTGTGCCGACGACAATTTTCAAG
TACTGCCTAAATAATAATGATGAATCTTCCTATTATTCACATGATATTAAAAATCATCAT
CCATATTCAATTAATGAAAATTCAGCATCACCTCTACCTTATGGTTATTCATCATCATAT
CCATCAGTTGACCTCAATCATCATCATTATTATTATTCACAACAATCACAATTACCCGAA
CAAGTTCAACAATTTAATGCACAAAATATTCGAACATCATCAGAAATAATCGATCAACAG
CAACAACCACAAAGTACGAATGATAAACGTCTGCAAATTGTCAAAGATAAACTACAAAAA
ATTAAAAACAAAAAAATTAAACTTCCACGCAAACAAAATGCAGTTCGTGAATCATTTGAG
CAGAATAAAGCATTAAGAAGTATGGCGAATGTTAGGGAAAGACAAAGAACTCAATCTTTA
AATGAAGCCTTTGGTGCATTAAGGAAAATTGTGCCGACATTGCCAAGTGATAAACTTAGC
AAAATTCAAACACTTAAATTAGCTTCGAGTTACATCGATTTTTTGTGCAACATGTTGGCG
ACAACAGAGTCAATGTCGGAAGAAAGATCATCGATATCGTCGGCATCAAGTTCACCGGCA
CAATGTTTGCAAGCATTTCAGAATGGCAGCACTATGAGTCCGATTGTACCCAATGAAAAG
TTGAGTTATATGTTTAATGTATGGAGGATGGAAGGTGAATGGAATAATTCAGCTAAAATT
GAATAG

>g3210.t1 Gene=g3210 Length=381
MALSPKLILDISQSQMENLSLNCTVIKVENASDNDSNNNSPLSQHQNYKENDIKYTDLDM
SVPSTVSFYEATTSVSSSSGNSTRKRKVAKNIDEHIEQNSGISQHFQACSPVDMESDAKR
FRFDNGSFESAATVPTTIFKYCLNNNDESSYYSHDIKNHHPYSINENSASPLPYGYSSSY
PSVDLNHHHYYYSQQSQLPEQVQQFNAQNIRTSSEIIDQQQQPQSTNDKRLQIVKDKLQK
IKNKKIKLPRKQNAVRESFEQNKALRSMANVRERQRTQSLNEAFGALRKIVPTLPSDKLS
KIQTLKLASSYIDFLCNMLATTESMSEERSSISSASSSPAQCLQAFQNGSTMSPIVPNEK
LSYMFNVWRMEGEWNNSAKIE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g3210.t1 Gene3D G3DSA:4.10.280.10 HLH 255 320 0.000
2 g3210.t1 PANTHER PTHR23349:SF50 PROTEIN TWIST 218 376 0.000
3 g3210.t1 PANTHER PTHR23349 BASIC HELIX-LOOP-HELIX TRANSCRIPTION FACTOR, TWIST 218 376 0.000
1 g3210.t1 Pfam PF00010 Helix-loop-helix DNA-binding domain 266 315 0.000
7 g3210.t1 ProSiteProfiles PS50888 Myc-type, basic helix-loop-helix (bHLH) domain profile. 264 315 15.618
5 g3210.t1 SMART SM00353 finulus 270 321 0.000
4 g3210.t1 SUPERFAMILY SSF47459 HLH, helix-loop-helix DNA-binding domain 263 328 0.000

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:0046983 protein dimerization activity 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. There were no conditions that were differentially expressed