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_3 g1987 g1987.t12 isoform g1987.t12 14227497 14228589
chr_3 g1987 g1987.t12 exon g1987.t12.exon1 14227497 14228133
chr_3 g1987 g1987.t12 cds g1987.t12.CDS1 14227772 14228133
chr_3 g1987 g1987.t12 exon g1987.t12.exon2 14228203 14228589
chr_3 g1987 g1987.t12 cds g1987.t12.CDS2 14228203 14228587
chr_3 g1987 g1987.t12 TSS g1987.t12 NA NA
chr_3 g1987 g1987.t12 TTS g1987.t12 NA NA

Sequences

>g1987.t12 Gene=g1987 Length=1024
AATTAATTCATAAAATCAGTCTTGAATTAGCGCTCAGTATGGATAGCAGCACAGAGCTTC
AGCTAGAAAAAATTAATAACGGCGTCGTGTCGTGTGATTATGCAGTAAAAATTCGGAATG
CATACAAGTGTTTTCAACAAAGGAATGAGAAGGTCGAAATTCTTAAAAGATTAAATATGT
CGATAAAAAAGAAATCAATGTAATGTGTCAAAAACTTCTAAATTAATTTTTTTTCGAGAA
CTAATTTGTGTATTTTTTTGGGTAGATATGCACTGATGGGTTGTAGTGGTGTAGGAAAAA
CAACTTTATTACGTTCTATAATTGCAATTGATACACTACAAAGTGGGAAAATTGAAATTT
TTGGTGAACCAGTAGTTCAAAATGATCCTAGAATCGGTTTTATGCCTCAGGAAATTTCAC
TCATCGAAAATTTTACAGTGAAAGAAATGGTCGATTTTTTCAGTGTATTATACAAATTGA
GAACTGAGAAAATCAATGCACGATTTAAATTTTTAAGTGAATTACTTGAACTTCCCGATG
ATAATAAATTTATTAAAGAATGCAGTCTCGGTGAAAAAAGGCGAATTTCGTTTGCATGTG
CTTTAGTTCATGAGCCAAAAATTTTAATTTTAGATGAACCAACAGTTGGTATTGACGCAG
TGCTACGTAAAAAGATTTGGGATTTTCTAATAGAACTTGTAGCTACTTCTGACACTACTG
TAATAATTTCAACACATTATATTCAAGAATCAATGAATTCCACGTGTGTAGGATTAATGA
GAAATGGAAAAATTTTAATTGAAGATAAACCACAAGACATTATTCAAAGATATAACACAA
AGAATTTAGAGGAAGCATTTTTGATACTGAGCGATGAACAAGATAAGAGTCTTAGTGTTT
CAGAAACAAATGAAGAAGAATTTGATTTTCTTTATCATGTGCCGAAGCAATCGTTCAATT
TTTCAATGAAACGGTTAATGGCGCTTTTAACAAAAAATTTTATTCATCAGAAAAGAAGCA
AGAC

>g1987.t12 Gene=g1987 Length=249
MGCSGVGKTTLLRSIIAIDTLQSGKIEIFGEPVVQNDPRIGFMPQEISLIENFTVKEMVD
FFSVLYKLRTEKINARFKFLSELLELPDDNKFIKECSLGEKRRISFACALVHEPKILILD
EPTVGIDAVLRKKIWDFLIELVATSDTTVIISTHYIQESMNSTCVGLMRNGKILIEDKPQ
DIIQRYNTKNLEEAFLILSDEQDKSLSVSETNEEEFDFLYHVPKQSFNFSMKRLMALLTK
NFIHQKRSK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g1987.t12 CDD cd03230 ABC_DR_subfamily_A 5 173 3.31638E-43
6 g1987.t12 Gene3D G3DSA:3.40.50.300 - 1 222 1.6E-44
2 g1987.t12 PANTHER PTHR43038 ATP-BINDING CASSETTE, SUB-FAMILY H, MEMBER 1 1 210 1.5E-74
3 g1987.t12 PANTHER PTHR43038:SF2 RH61964P 1 210 1.5E-74
1 g1987.t12 Pfam PF00005 ABC transporter 1 123 8.6E-19
5 g1987.t12 ProSitePatterns PS00211 ABC transporters family signature. 96 110 -
7 g1987.t12 ProSiteProfiles PS50893 ATP-binding cassette, ABC transporter-type domain profile. 1 195 11.231
4 g1987.t12 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 1 187 2.09E-41

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. There were no conditions that were differentially expressed