Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative ABC transporter G family member 16.

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 g2678 g2678.t2 isoform g2678.t2 19686747 19688147
chr_3 g2678 g2678.t2 exon g2678.t2.exon1 19686747 19687366
chr_3 g2678 g2678.t2 exon g2678.t2.exon2 19687525 19688147
chr_3 g2678 g2678.t2 cds g2678.t2.CDS1 19687556 19688146
chr_3 g2678 g2678.t2 TSS g2678.t2 NA NA
chr_3 g2678 g2678.t2 TTS g2678.t2 NA NA

Sequences

>g2678.t2 Gene=g2678 Length=1243
TTTTTTTTAAATGAGTTTTTAATGAAACCTTGTGTGTCCTTGAATCATTCAAATCTCATC
TTGTGACACGAATATTAAAATATCATATATTAAATTCGTGGTTTTGGTGTTAAAATTTAA
AAATAAAAAAACTAAGGAGGTCACTAACCTAAACTTGAAACATGCAACCTGAGAAAAAAA
AGTATAGCGCTCAGCTGTTTTATGTTCTCTATTTTTATCGTCGTTATTGATGCATTTTCA
ACTGTTGAATTATTTAAAATGATGTTGATGTAGATGTGTAATAATGAAAATACGAACAGA
TAAATTGTCTATAGATAGAGTTCTTCCAATAAAAATATTTTTCAGTGAGCAGCTTATAAA
AAATAGAAAATAATAAAGAGTACGTGGTTAGTTAGAATTTAGCAAGCAAGCTCTCCAGTA
ACACGCTATTCTTCATCATTTTTTTATATTTGATTGCTCTTAAATAATTTAGTTGAAAAA
GAAGCTTGGACTTTTAAAATAAAAGGATTTTAAATATATTTTAAAGAGAATAAGAAATCA
CCCTTGAAACCATAAATTAGATTTGAATTTAACATTGTGCTAAACAATTATTACACAAAT
GAACAACATGTCATTATTTTATTCCTTCACAAAGATTTAAAAAGTTAAAAAATGGATAAC
TCTGTAATTAATCGTGAAAATTTTAAATTTGCATTTAAAAATGTGACATATAATATTGGT
GTTGAAAACAAATTTTTTAGAAGAAAAGCACGAACCATTTTAAATCAAATCTCAGGAGAA
TTTCGTGCAAATGAAATATCAGCTATAATTGGATTGAGTGGTAGCGGTAAAAGTACATTA
TTGGATTGTCTCTCTGGATTTCGTAAAAATTATACTAATGGATCATTCCTAATAAATGAT
AATGAGATATCTGTTGAAACTATCAAACGATTAAGTTCATATTTCATGCAAGAACAAACA
CTTCATCCATTTCTCACTGTGACAGAAATTTTAATATTTTCATTAAGCATGAAAGGAGGT
GACAATTTAAAAGAAAATGAAAAAAATTTAAGAATTGAACAAATCCTTGAAAAATTAAGC
ATTACAAATAGAAATAATACATTGATAAAAGATTTGAGTGGTGGTGAAAAAAAGAGACTT
CAAATCGCAATTGAGCTTGTTAGGGACCCAAAAATTTTATTTCTCGACGAGCCAACTACA
AATCTCGACAGTTTTTCTACAGTACAATGTATAAATTTTTTAA

>g2678.t2 Gene=g2678 Length=197
MDNSVINRENFKFAFKNVTYNIGVENKFFRRKARTILNQISGEFRANEISAIIGLSGSGK
STLLDCLSGFRKNYTNGSFLINDNEISVETIKRLSSYFMQEQTLHPFLTVTEILIFSLSM
KGGDNLKENEKNLRIEQILEKLSITNRNNTLIKDLSGGEKKRLQIAIELVRDPKILFLDE
PTTNLDSFSTVQCINFL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g2678.t2 Gene3D G3DSA:3.40.50.300 - 12 197 1.1E-42
2 g2678.t2 PANTHER PTHR48041:SF78 ABC TRANSPORTER EXPRESSED IN TRACHEA, ISOFORM A-RELATED 9 197 6.9E-55
3 g2678.t2 PANTHER PTHR48041 ABC TRANSPORTER G FAMILY MEMBER 28 9 197 6.9E-55
1 g2678.t2 Pfam PF00005 ABC transporter 37 182 3.7E-28
5 g2678.t2 ProSitePatterns PS00211 ABC transporters family signature. 155 169 -
7 g2678.t2 ProSiteProfiles PS50893 ATP-binding cassette, ABC transporter-type domain profile. 22 197 9.537
4 g2678.t2 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 14 197 3.91E-39

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:0005524 ATP binding MF
GO:0016887 ATP hydrolysis 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