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_1 g9376 g9376.t4 TTS g9376.t4 2299024 2299024
chr_1 g9376 g9376.t4 isoform g9376.t4 2299164 2300447
chr_1 g9376 g9376.t4 exon g9376.t4.exon1 2299164 2299415
chr_1 g9376 g9376.t4 cds g9376.t4.CDS1 2299164 2299415
chr_1 g9376 g9376.t4 exon g9376.t4.exon2 2299474 2299598
chr_1 g9376 g9376.t4 cds g9376.t4.CDS2 2299474 2299598
chr_1 g9376 g9376.t4 exon g9376.t4.exon3 2299721 2299760
chr_1 g9376 g9376.t4 cds g9376.t4.CDS3 2299721 2299760
chr_1 g9376 g9376.t4 exon g9376.t4.exon4 2299842 2300046
chr_1 g9376 g9376.t4 cds g9376.t4.CDS4 2299842 2300046
chr_1 g9376 g9376.t4 exon g9376.t4.exon5 2300115 2300365
chr_1 g9376 g9376.t4 cds g9376.t4.CDS5 2300115 2300146
chr_1 g9376 g9376.t4 exon g9376.t4.exon6 2300437 2300447
chr_1 g9376 g9376.t4 TSS g9376.t4 2301161 2301161

Sequences

>g9376.t4 Gene=g9376 Length=884
GCTATGTAAAGCCTAATCAAGAAAGTTTCGAAAAAGGGAAAAAGGAAATTCGTCATGCTT
TTAATATTTGCACACTTGATGCAAAATTGCCTGACGATCCATTGCCAGGTTTTAAAAAAC
ATATTAGTGAACTTGCAAAAGATTTCAAAAACATCACTAGTTTGCTATTACAAGCACTTG
CAATTGGCTTAGAGCTTCCAGCCAATTTCTTTGTAGAAAAACACTCACACATGCTTGATT
GCGATAACGAAACAACATTTCGATTGCTCTATTATCCACCATTGGTTATTGATGATGATA
AAAATGAAAATTTCACTAAAGGATCTTCAACATATTGCCATCAAAAAACCAAATTTGATG
AATCGAAATTGGGTTCACTCGACATGAAGGATAAAGAAAATGATCAAGAGGAAACACATA
TTAAAAAAGAGGAAGTTCAAAATTTCACTCGATGTGGAGCTCATTGTGATTATGGAACAT
TTACTCTATTGATTCAAGACGTCGAGGGTGGACTTGAAGTTAAATTGCCAAATAGTGAAA
AGTGGCAAAGGGTAGGTCATCTTGGTGGTGCCATTTTTGCGAATGTTGGTGAACTTTTGT
CAATATGGACTAATGGAGCTTATCCTGCCTTAAACCATCGAGTTGTTATTCCTGAAAATT
CAATAGCAACCACAAAGGGTCGACATGCAATTGCCTATTTTGTTCATCCTGATAATTTAA
CTCCAATTGTGCCTATGGATGTTTCGCCACCATCGTCTTCTCAAGAAGCAATAAATGAGA
AGAAAGAAAAGACAAGGAAAAAGTCATTTAAAGCGGCAAAAATGAAAATTTACAACGCAT
ATCAACATGTTCAGAGAAGATTTAAAGAAACTTATGCATCATAA

>g9376.t4 Gene=g9376 Length=217
MLDCDNETTFRLLYYPPLVIDDDKNENFTKGSSTYCHQKTKFDESKLGSLDMKDKENDQE
ETHIKKEEVQNFTRCGAHCDYGTFTLLIQDVEGGLEVKLPNSEKWQRVGHLGGAIFANVG
ELLSIWTNGAYPALNHRVVIPENSIATTKGRHAIAYFVHPDNLTPIVPMDVSPPSSSQEA
INEKKEKTRKKSFKAAKMKIYNAYQHVQRRFKETYAS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g9376.t4 Gene3D G3DSA:2.60.120.330 - 33 217 1.2E-33
5 g9376.t4 MobiDBLite mobidb-lite consensus disorder prediction 172 191 -
2 g9376.t4 PANTHER PTHR47990:SF134 CHROMOSOME 16, WHOLE GENOME SHOTGUN SEQUENCE 73 214 1.9E-17
3 g9376.t4 PANTHER PTHR47990 2-OXOGLUTARATE (2OG) AND FE(II)-DEPENDENT OXYGENASE SUPERFAMILY PROTEIN-RELATED 73 214 1.9E-17
1 g9376.t4 Pfam PF03171 2OG-Fe(II) oxygenase superfamily 11 160 9.4E-16
4 g9376.t4 SUPERFAMILY SSF51197 Clavaminate synthase-like 4 215 2.75E-32

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:0055114 NA NA
GO:0016491 oxidoreductase 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.

Raw TPM values