Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative ABC transporter G family member 20.

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_4 g15095 g15095.t2 TSS g15095.t2 3888046 3888046
chr_4 g15095 g15095.t2 isoform g15095.t2 3888055 3889081
chr_4 g15095 g15095.t2 exon g15095.t2.exon1 3888055 3888158
chr_4 g15095 g15095.t2 cds g15095.t2.CDS1 3888055 3888158
chr_4 g15095 g15095.t2 exon g15095.t2.exon2 3888322 3889081
chr_4 g15095 g15095.t2 cds g15095.t2.CDS2 3888322 3889081
chr_4 g15095 g15095.t2 TTS g15095.t2 NA NA

Sequences

>g15095.t2 Gene=g15095 Length=864
ATGAGCTGCGTTGAGGTAAAGAACGTTTTTTTCAGCTACAACAACGGAGATAAAGAGGAA
AAAATTCTTAATGGAATAAATATGAGTGTTGATCGTGGCACAATCTACACATTGATTGGT
GCATCGGGTTGTGGAAAAACAACACTTTTAAGTTGTCTCATGTGCATTCAAAAACCACAA
AGTGGAGAACTTAAAGTTTTCAATCAAAAATCAGCAAAAATTCCAAAATTAATTGGTTTT
ATGCCACAACAAAATTCTTTAGTTGCCGAACTTACAATCAATGAAACACTTCAATATTTT
GGGCATCTTTATGAAATGAAACAGGAAATTTTTGATGAGCGCTTTGAAATGATTTCCGAA
CTTCTCGATTTACCGGATAAAAATTTACAAATTCGTGACTTATCAGGTGGCGAACAGCGA
AGAATTTCATTGGCAGCAACAATAATTCATGATCCAAAATTATTGATTCTTGATGAGCCA
ACTGTTGGACTTGATTTTCTACTTAGAGAAAAAATTTGGGAATTTTTGTTTCAAAAAACA
ACAAATGATAATGTCACGGCAATAATCACAACACATTACATTAGTGAAGCTGCAAATGCT
CATCGTTGTGGTTTTATGAGAAATGGAATTTTAATTGCAGAAGATTCGCCAAATGCAATT
TTAGATAAACTTAATATTGAAAGTCTTGATGAAGCTTTTTACCATTTGTGTACCAAAAAA
GAAAATGAAAATCAAATAATTCTTGAAAGTGAAAATTTTGGAAGAGAACAAAATGAAGAG
AAAATTGAAGAACAAAAAATTTTTAGACCGAAAATTATGAAAGGATTGTTGATTAAGGAA
TTTCATAGGATACGACGACAGCCA

>g15095.t2 Gene=g15095 Length=288
MSCVEVKNVFFSYNNGDKEEKILNGINMSVDRGTIYTLIGASGCGKTTLLSCLMCIQKPQ
SGELKVFNQKSAKIPKLIGFMPQQNSLVAELTINETLQYFGHLYEMKQEIFDERFEMISE
LLDLPDKNLQIRDLSGGEQRRISLAATIIHDPKLLILDEPTVGLDFLLREKIWEFLFQKT
TNDNVTAIITTHYISEAANAHRCGFMRNGILIAEDSPNAILDKLNIESLDEAFYHLCTKK
ENENQIILESENFGREQNEEKIEEQKIFRPKIMKGLLIKEFHRIRRQP

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g15095.t2 CDD cd03230 ABC_DR_subfamily_A 4 211 1.66973E-52
5 g15095.t2 Gene3D G3DSA:3.40.50.300 - 2 276 2.1E-56
2 g15095.t2 PANTHER PTHR43038 ATP-BINDING CASSETTE, SUB-FAMILY H, MEMBER 1 1 245 1.9E-85
3 g15095.t2 PANTHER PTHR43038:SF2 RH61964P 1 245 1.9E-85
1 g15095.t2 Pfam PF00005 ABC transporter 23 161 3.0E-27
7 g15095.t2 ProSitePatterns PS00211 ABC transporters family signature. 134 148 -
9 g15095.t2 ProSiteProfiles PS50893 ATP-binding cassette, ABC transporter-type domain profile. 4 233 20.035
8 g15095.t2 SMART SM00382 AAA_5 32 214 6.1E-8
4 g15095.t2 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 4 224 1.88E-51

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

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