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.t4 TTS g4700.t4 4263286 4263286
chr_2 g4700 g4700.t4 isoform g4700.t4 4263312 4264581
chr_2 g4700 g4700.t4 exon g4700.t4.exon1 4263312 4264163
chr_2 g4700 g4700.t4 cds g4700.t4.CDS1 4263451 4264163
chr_2 g4700 g4700.t4 exon g4700.t4.exon2 4264223 4264444
chr_2 g4700 g4700.t4 cds g4700.t4.CDS2 4264223 4264444
chr_2 g4700 g4700.t4 exon g4700.t4.exon3 4264506 4264581
chr_2 g4700 g4700.t4 cds g4700.t4.CDS3 4264506 4264581
chr_2 g4700 g4700.t4 TSS g4700.t4 4264632 4264632

Sequences

>g4700.t4 Gene=g4700 Length=1150
ATGGAAGAAGATGATCAACCAAGACAGCCAAGACAGCCTCACAACTATCAGGCTTTATTA
AAATTCGCAATGGAAGCAACAAAAGATGAAGATCGAACAGAACCATCACGTTTTGAACAA
ATGGATCCTGAAAGAAGGAGATTCTTAGAAGAAGCATTAAAATCACTTACAGTAGATGTA
ATAGAAGAACTCAATAAAGCCATGGACATTTTAATCAAAGCTGAAGCAAATGAAGAAGAA
CAAGTGCATGCTCTCGAAGTCGTGACTAATTTTGTTGCTGATATTGATACCGCCAATGAT
TTTTTCAAAATCGGTGGCTTTTGTATTCTTTTGCCTTGTCTCAATTCAAAATATTCTGAA
GTGAGAAGTGGAACAGCAGAATTGATTGCTGAACTTGCACAAAATAATCCATTCTGTCAA
AAACATTTATTAGATCTCGAAGTACTGCCAAAATTAATTGAACTTCTCTCAGATGAACCA
GAAATCGCTTCACACTCATTCCATGCCATTTCTTGTCTCGTGAGAAGCTATGAACCAGGC
TTGGCGAGTTTTATTGAAATTGGTGGACTAGAGTGCATGTTGGGACTTATTCAATGCAAA
GATCAAGAGAAACTCGTGATAAAATCAATGTTTCTTATTTCATCATTCTCAAAAGATTTT
CCACCAGTTCGTGATGAGCTTGTTAAACTTAATGCAATTGAAAGAATAACAACAATTCTC
GAACCAAAATCAGACTATGACACACTCTTGGAGCAAAGTTTGTCTGCACTTTCTTCACTT
ATTGAAACAGAAGATGCAATTCAAAGATGTCGCAATAGCACGATAAATTTACGAGAAAAA
CTCGAGAAAATAATTCTCGCGGGAAAAGGAAAAGAAGAGTGTCAAGTAAGTAAGCTGAGA
CATAGTCATGTTTTTTTAAAAAAAAATTCTAATTTTACGCAATGTTCAATGAACTCTCAG
CACATGTTATGTCTTTGTAAACAGGAAATTATAAATTTTCCATGCAAATAATATACATGA
CATGTTTGTTAGCTGTAAATTGCAGTTGTTAATTAAAATTAGAATAATATTATTAATTTT
ATTTTCTTTTCTGTCTTTTTAGGAACAAGTTGAATACAGTCAAGCATTGATTGGAAAGAT
TTTTAAATAA

>g4700.t4 Gene=g4700 Length=336
MEEDDQPRQPRQPHNYQALLKFAMEATKDEDRTEPSRFEQMDPERRRFLEEALKSLTVDV
IEELNKAMDILIKAEANEEEQVHALEVVTNFVADIDTANDFFKIGGFCILLPCLNSKYSE
VRSGTAELIAELAQNNPFCQKHLLDLEVLPKLIELLSDEPEIASHSFHAISCLVRSYEPG
LASFIEIGGLECMLGLIQCKDQEKLVIKSMFLISSFSKDFPPVRDELVKLNAIERITTIL
EPKSDYDTLLEQSLSALSSLIETEDAIQRCRNSTINLREKLEKIILAGKGKEECQVSKLR
HSHVFLKKNSNFTQCSMNSQHMLCLCKQEIINFPCK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g4700.t4 Coils Coil Coil 61 81 -
5 g4700.t4 Gene3D G3DSA:1.25.10.10 - 50 307 1.7E-58
2 g4700.t4 PANTHER PTHR19316:SF18 HSP70-BINDING PROTEIN 1 14 301 5.7E-45
3 g4700.t4 PANTHER PTHR19316 PROTEIN FOLDING REGULATOR 14 301 5.7E-45
1 g4700.t4 Pfam PF08609 Nucleotide exchange factor Fes1 17 100 2.8E-7
4 g4700.t4 SUPERFAMILY SSF48371 ARM repeat 49 285 1.52E-33

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.

Raw TPM values