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 g4700 g4700.t9 TTS g4700.t9 4263286 4263286
chr_2 g4700 g4700.t9 isoform g4700.t9 4263312 4264581
chr_2 g4700 g4700.t9 exon g4700.t9.exon1 4263312 4263359
chr_2 g4700 g4700.t9 cds g4700.t9.CDS1 4263349 4263359
chr_2 g4700 g4700.t9 exon g4700.t9.exon2 4263573 4264163
chr_2 g4700 g4700.t9 cds g4700.t9.CDS2 4263573 4264163
chr_2 g4700 g4700.t9 exon g4700.t9.exon3 4264223 4264444
chr_2 g4700 g4700.t9 cds g4700.t9.CDS3 4264223 4264400
chr_2 g4700 g4700.t9 exon g4700.t9.exon4 4264496 4264581
chr_2 g4700 g4700.t9 TSS g4700.t9 4264632 4264632

Sequences

>g4700.t9 Gene=g4700 Length=947
ATGGAAGAAGATGATCAACCAAGACAGCCAAGACAGCCTCACAACTATCAGGCTTTATTA
AAATTCGCAATGGAAGGTAAAATAAACAACAAAAGATGAAGATCGAACAGAACCATCACG
TTTTGAACAAATGGATCCTGAAAGAAGGAGATTCTTAGAAGAAGCATTAAAATCACTTAC
AGTAGATGTAATAGAAGAACTCAATAAAGCCATGGACATTTTAATCAAAGCTGAAGCAAA
TGAAGAAGAACAAGTGCATGCTCTCGAAGTCGTGACTAATTTTGTTGCTGATATTGATAC
CGCCAATGATTTTTTCAAAATCGGTGGCTTTTGTATTCTTTTGCCTTGTCTCAATTCAAA
ATATTCTGAAGTGAGAAGTGGAACAGCAGAATTGATTGCTGAACTTGCACAAAATAATCC
ATTCTGTCAAAAACATTTATTAGATCTCGAAGTACTGCCAAAATTAATTGAACTTCTCTC
AGATGAACCAGAAATCGCTTCACACTCATTCCATGCCATTTCTTGTCTCGTGAGAAGCTA
TGAACCAGGCTTGGCGAGTTTTATTGAAATTGGTGGACTAGAGTGCATGTTGGGACTTAT
TCAATGCAAAGATCAAGAGAAACTCGTGATAAAATCAATGTTTCTTATTTCATCATTCTC
AAAAGATTTTCCACCAGTTCGTGATGAGCTTGTTAAACTTAATGCAATTGAAAGAATAAC
AACAATTCTCGAACCAAAATCAGACTATGACACACTCTTGGAGCAAAGTTTGTCTGCACT
TTCTTCACTTATTGAAACAGAAGATGCAATTCAAAGATGTCGCAATAGCACGATAAATTT
ACGAGAAAAACTCGAGAAAATAATTCTCGCGGGAAAAGGAAAAGAAGAGTGTCAAGTAAG
AACAAGTTGAATACAGTCAAGCATTGATTGGAAAGATTTTTAAATAA

>g4700.t9 Gene=g4700 Length=259
MDPERRRFLEEALKSLTVDVIEELNKAMDILIKAEANEEEQVHALEVVTNFVADIDTAND
FFKIGGFCILLPCLNSKYSEVRSGTAELIAELAQNNPFCQKHLLDLEVLPKLIELLSDEP
EIASHSFHAISCLVRSYEPGLASFIEIGGLECMLGLIQCKDQEKLVIKSMFLISSFSKDF
PPVRDELVKLNAIERITTILEPKSDYDTLLEQSLSALSSLIETEDAIQRCRNSTINLREK
LEKIILAGKGKEECQVRTS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g4700.t9 Coils Coil Coil 21 41 -
4 g4700.t9 Gene3D G3DSA:1.25.10.10 - 11 258 5.7E-59
1 g4700.t9 PANTHER PTHR19316:SF18 HSP70-BINDING PROTEIN 1 2 245 4.9E-39
2 g4700.t9 PANTHER PTHR19316 PROTEIN FOLDING REGULATOR 2 245 4.9E-39
3 g4700.t9 SUPERFAMILY SSF48371 ARM repeat 9 245 6.17E-34

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

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