Gene loci information

Transcript annotation

  • This transcript has been annotated as ATP-binding cassette sub-family D member.

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 g14251 g14251.t2 isoform g14251.t2 35853403 35856788
chr_1 g14251 g14251.t2 exon g14251.t2.exon1 35853403 35854010
chr_1 g14251 g14251.t2 cds g14251.t2.CDS1 35853403 35854010
chr_1 g14251 g14251.t2 exon g14251.t2.exon2 35855328 35855551
chr_1 g14251 g14251.t2 cds g14251.t2.CDS2 35855328 35855551
chr_1 g14251 g14251.t2 exon g14251.t2.exon3 35855616 35855803
chr_1 g14251 g14251.t2 cds g14251.t2.CDS3 35855616 35855803
chr_1 g14251 g14251.t2 exon g14251.t2.exon4 35855879 35855989
chr_1 g14251 g14251.t2 cds g14251.t2.CDS4 35855879 35855989
chr_1 g14251 g14251.t2 exon g14251.t2.exon5 35856061 35856406
chr_1 g14251 g14251.t2 cds g14251.t2.CDS5 35856061 35856406
chr_1 g14251 g14251.t2 exon g14251.t2.exon6 35856468 35856724
chr_1 g14251 g14251.t2 cds g14251.t2.CDS6 35856468 35856724
chr_1 g14251 g14251.t2 exon g14251.t2.exon7 35856775 35856788
chr_1 g14251 g14251.t2 cds g14251.t2.CDS7 35856775 35856786
chr_1 g14251 g14251.t2 TTS g14251.t2 35857466 35857466
chr_1 g14251 g14251.t2 TSS g14251.t2 NA NA

Sequences

>g14251.t2 Gene=g14251 Length=1748
ATGCCTGCAATAGTTTCTAAATTTTTATCAGACGCTGTCGATACATATGAGCGTCGCGGT
AAAAATGTCGAAGTAATTTCAAAGACACTTTTAACCACAGCCGTTCTTGCGTATGTCGTT
AAAATATCATATCCACATATCAAACGTAAAATTAAAGACAAAAAGCCTTCCATTAATGGC
TCGTGTGTAAATTACAACAATAATAATAATACAATCAATAAATATGGAAAGAATTCAAAA
AGTGAAAAGGAAAAGATTGAGGATATCAAAGAAGTTAAAGAGCTCAGTTTATTTGCAAGA
GCATTAAGGCAACCAGGACTGAATTTACAATTTGTGTTACAATTAAGAAAATTAATTGAG
ATTATGATTCCAAGTCTTGTATGCTATGAGACAGGGCTATTAAGTGTTCACACTTTGTGC
CTCATATCGAGAACCTTCTTGAGTATTTATGTTGCTGCAATGGAAGGTGCAATAGTTAAA
TATATTGTGCGAAAAGATGTCAAGAATTTCGTGTATATGTTATTGAAATGGTTTGGAATT
GCAATTCCCGCGACGTTCATAAATTCAATGATTAGATATTTGGAAAACAAATTGGCATTA
GCTTTTAGAACGAGACTTGTCAATCACGCTTATAAGCAATATTTCACAAATCAAACGTAC
TACAAAGTATCAAATTTAGATGGACGCATCGAAAATGCAGATCACCGATTAACAGATGAT
ATTACAACATTCTCTAGTTCAGTAGCACATCTTTATTCTCATTTGACTAAGCCATGTTTT
GACCTTATGCTCATCGGTCTATCTTTAGCACATTCGTCTTATAAAATGAAGGCAAACATA
GTAAATGGACCACTGATAGGATTCTTCGTAATAACAACCACAGCCCACATTATGAGAATT
GCATCGCCAAGATTTGGTCAGTTGGCATGTGAGGAAGCGAATAGAAACGGTTATTTACGT
CATATTCATTCAAGAATCATTACAAATGCAGAGGAAATTGCTTTCTATGGTGGACATAAG
GTTGAACACATACAGCTTAGTGAGGCATATCATCGATTATGTCGGCAAATGAACAGAATT
TTCTCTCAAAAACTGTGGTTTGTCATGCTCGAGCAATTCTTCATGAAATATGTATGGTCC
GGTACAGGCATGATTATGGTATCACTACCAATTTTAACTACAAGCCATTTGAGTAGTGAT
GAAGATCAAAAGAGCAACACAGGAAGTAAAGTTAGTCAACGTACTGAATATTTTACAACT
GCTAGTAACTTACTTAAATCTGGTGCTGATGCTGTTGAGAGACTTATGTCTAGTTATAAA
GAAATTGTAGAACTGGCAGGCTATACAAGTCGTGTTTCAGAAATGTTTCAAGTCTTTGAA
GAAGTATCACAGGGTATTTATAAAAAGACAACAGTTGATGATGAAACAGCTACAGAAGGA
ATACTTGAATTTAAAAATGGTCAACCAGTTGCTAATGGCAAAATATTTTATGATACAGAA
AATATGTCTATAACACTTAAAAATGTTCCAGTTGTGACTCCAAATTGCGATATTGTTGTT
CCAAATTTAACATTAACAATCAGACCTGGCATGCATTTACTTATAACTGGGCCAAATGGC
TGTGGAAAATCGAGTTTATTCCGAATTTTAAGTGGTCTTTGGCCTATTTATAATGGAGAG
CTTCATTTGCCAAAAACATGTGAGGATAAACCATGCATGTTCTACATTCCACAAAATAAC
ATTACAGC

>g14251.t2 Gene=g14251 Length=582
MPAIVSKFLSDAVDTYERRGKNVEVISKTLLTTAVLAYVVKISYPHIKRKIKDKKPSING
SCVNYNNNNNTINKYGKNSKSEKEKIEDIKEVKELSLFARALRQPGLNLQFVLQLRKLIE
IMIPSLVCYETGLLSVHTLCLISRTFLSIYVAAMEGAIVKYIVRKDVKNFVYMLLKWFGI
AIPATFINSMIRYLENKLALAFRTRLVNHAYKQYFTNQTYYKVSNLDGRIENADHRLTDD
ITTFSSSVAHLYSHLTKPCFDLMLIGLSLAHSSYKMKANIVNGPLIGFFVITTTAHIMRI
ASPRFGQLACEEANRNGYLRHIHSRIITNAEEIAFYGGHKVEHIQLSEAYHRLCRQMNRI
FSQKLWFVMLEQFFMKYVWSGTGMIMVSLPILTTSHLSSDEDQKSNTGSKVSQRTEYFTT
ASNLLKSGADAVERLMSSYKEIVELAGYTSRVSEMFQVFEEVSQGIYKKTTVDDETATEG
ILEFKNGQPVANGKIFYDTENMSITLKNVPVVTPNCDIVVPNLTLTIRPGMHLLITGPNG
CGKSSLFRILSGLWPIYNGELHLPKTCEDKPCMFYIPQNNIT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g14251.t2 Gene3D G3DSA:3.40.50.300 - 495 582 2.1E-13
3 g14251.t2 PANTHER PTHR11384 ATP-BINDING CASSETTE, SUB-FAMILY D MEMBER 30 579 4.7E-192
4 g14251.t2 PANTHER PTHR11384:SF13 PEROXISOMAL MEMBRANE PROTEIN RELATED 30 579 4.7E-192
1 g14251.t2 Pfam PF06472 ABC transporter transmembrane region 2 118 392 8.4E-95
2 g14251.t2 Pfam PF00005 ABC transporter 522 564 3.7E-8
14 g14251.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 24 -
19 g14251.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 25 44 -
12 g14251.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 45 125 -
18 g14251.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 126 150 -
13 g14251.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 151 169 -
17 g14251.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 170 191 -
11 g14251.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 192 364 -
16 g14251.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 365 389 -
15 g14251.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 390 582 -
10 g14251.t2 ProSiteProfiles PS50929 ABC transporter integral membrane type-1 fused domain profile. 138 375 10.83
7 g14251.t2 SUPERFAMILY SSF90123 ABC transporter transmembrane region 132 385 7.98E-11
8 g14251.t2 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 494 564 1.15E-13
5 g14251.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 141 163 -
6 g14251.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 170 192 -

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:0055085 transmembrane transport BP
GO:0005524 ATP binding MF
GO:0042626 ATPase-coupled transmembrane transporter activity MF
GO:0016021 integral component of membrane CC

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