Gene loci information

Transcript annotation

  • This transcript has been annotated as ATP-binding cassette sub-family G member 1.

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 g2524 g2524.t4 TTS g2524.t4 18432307 18432307
chr_3 g2524 g2524.t4 isoform g2524.t4 18432333 18434308
chr_3 g2524 g2524.t4 exon g2524.t4.exon1 18432333 18432949
chr_3 g2524 g2524.t4 cds g2524.t4.CDS1 18432357 18432949
chr_3 g2524 g2524.t4 exon g2524.t4.exon2 18433012 18433765
chr_3 g2524 g2524.t4 cds g2524.t4.CDS2 18433012 18433765
chr_3 g2524 g2524.t4 exon g2524.t4.exon3 18433858 18434159
chr_3 g2524 g2524.t4 cds g2524.t4.CDS3 18433858 18434159
chr_3 g2524 g2524.t4 exon g2524.t4.exon4 18434242 18434308
chr_3 g2524 g2524.t4 cds g2524.t4.CDS4 18434242 18434308
chr_3 g2524 g2524.t4 TSS g2524.t4 18434369 18434369

Sequences

>g2524.t4 Gene=g2524 Length=1740
ATGAGTAGGTGGGATATAAGTTTCAAGAATATAGAATACAGTATATTTGGTTCTTTAATT
CATAAAAATAAAAAAATCTTGAATGACATAAGTGGTGAATTTCGTTCAAATGAGTTGACT
GCAATAATTGGTTCTAGTGGCAGTGGAAAAAGCTCTCTATTAAACATTCTATCGGGTTAT
CAAAGAAAAAACGTCAAAGGATCAATCGAGCTTAATGGAATTCAAAGTTCACAACTCATT
CAAGAATTTTCGTCATACGTAATGCAAGAGTATACATTTCATAAATACATCACAGTTCGA
GAGACATTATTATTCCGAATCAATTGTAAAATTTCTAAACAACAAGATGAGAGCATAAAG
AATGAGAAGATCGAGATGATTTTAAATAAAATTGGCCTTATTGATAAAGAGCATGTTTAT
TGTGAAAAATTGAGTGGTGGTGAAATTAAGCGATTGTCAATTGCTGTTGAACTTTTAGAT
GATCCTAAAATTTTATTTATTGACGAATGCACAACGGGCTTAGATAGTGTGACTTCTACA
CAATGCATTCAACTTCTTAAGAATATCTCTAAAGAAGGACGTACGATAATTACTTCAATT
CATCAACCAAGTGCTTTAATATTCAATATGTTTGATCATATTTACGCGCTTGCAAACGGT
CAATGCATTTACCAAGGTTCAACGGAAAGTTTAGTTCCTTTTCTATCTGAGCTTGATCTT
ATTTGTCCACACAACTATAATATAACTGATTTTTTAATGGAGATTGCAAACAATGATTAT
GGACCTCAAAATAATCGATTAATAAATAAAGTTGAGATAAGATCACATCGTCATGGAGTG
TGTAAAAATAATGACTCATCACCAATAATAATTAGCGCGTTAGAAGTTCAAAGTTTGAGA
AATGAAATTTCACAATTATTGAAAAGAAACATGCTCAACAATTATCGTGATAAGACATTC
ACAATTATGAGAATTTTAATTCACCTAATCATAGCAGGAATTATTGGAATAATTTATAAA
GGAATTGGCAAAGATGGAAGTCAAATACTCAATGTATACAAATTTTTATTTTTTAATATA
TTCATCTTAATGTTTACTGCTTTTAGCTCTCTTCAAACTTCATTTCCCACTGAATATTCA
ATTGTAAAGCGCGAAAATTTCAACAAGATGTACACGGTGTTTAGTTACTTCATAGCTCAG
AATTTAGCTGATATACCTATTATATTTATATCAAATTTATTATACGTTATAATTTCATAC
GTGATGACAGATCAACCATTTGAGATTTTTAGATTAATTTATTACTTTTTCATTATACTC
TTGATGAGTTTTGCTGCTCAAGGTCTTGGATTGGTTGCTGGGTCATTTTTAAATGTAAAA
TATACATTAATTCTCGGGAGTTTTTTCATGTGTCCATTTGTGTTGTTTTCAAATTTTTTC
ATACACATGAAAGATGCACAAAGCTATTTTCACTTTCTTTTTGATTTTTCATTCATAAAA
TATGCATTCGATGGAAGTTGCTTAGCAATTTTCGGTTTCAATCGTGATAAAATGGATTGT
GACGCTATTTATTGTCACTTTCGTTGGCCTCATAAATTTTTAGAATTTTTACAAATACAT
GACGATTTTCATTCCATAGTTTTTAAGCTTATAATCTTTATTATTGTTTTTCGCTTCATT
GCATTCACAATAATCTTTTATCGTCTCAAGAGATAATAAATGACTAAGAAAAAAATAAAA

>g2524.t4 Gene=g2524 Length=571
MSRWDISFKNIEYSIFGSLIHKNKKILNDISGEFRSNELTAIIGSSGSGKSSLLNILSGY
QRKNVKGSIELNGIQSSQLIQEFSSYVMQEYTFHKYITVRETLLFRINCKISKQQDESIK
NEKIEMILNKIGLIDKEHVYCEKLSGGEIKRLSIAVELLDDPKILFIDECTTGLDSVTST
QCIQLLKNISKEGRTIITSIHQPSALIFNMFDHIYALANGQCIYQGSTESLVPFLSELDL
ICPHNYNITDFLMEIANNDYGPQNNRLINKVEIRSHRHGVCKNNDSSPIIISALEVQSLR
NEISQLLKRNMLNNYRDKTFTIMRILIHLIIAGIIGIIYKGIGKDGSQILNVYKFLFFNI
FILMFTAFSSLQTSFPTEYSIVKRENFNKMYTVFSYFIAQNLADIPIIFISNLLYVIISY
VMTDQPFEIFRLIYYFFIILLMSFAAQGLGLVAGSFLNVKYTLILGSFFMCPFVLFSNFF
IHMKDAQSYFHFLFDFSFIKYAFDGSCLAIFGFNRDKMDCDAIYCHFRWPHKFLEFLQIH
DDFHSIVFKLIIFIIVFRFIAFTIIFYRLKR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g2524.t4 Gene3D G3DSA:3.40.50.300 - 6 237 3.3E-53
4 g2524.t4 PANTHER PTHR48041:SF78 ABC TRANSPORTER EXPRESSED IN TRACHEA, ISOFORM A-RELATED 4 567 2.5E-172
5 g2524.t4 PANTHER PTHR48041 ABC TRANSPORTER G FAMILY MEMBER 28 4 567 2.5E-172
3 g2524.t4 Pfam PF00005 ABC transporter 27 171 4.4E-24
1 g2524.t4 Pfam PF19055 ABC-2 type transporter 201 264 3.9E-6
2 g2524.t4 Pfam PF01061 ABC-2 type transporter 303 507 1.4E-34
13 g2524.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 319 -
16 g2524.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 320 339 -
8 g2524.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 340 350 -
20 g2524.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 351 373 -
12 g2524.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 374 392 -
18 g2524.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 393 421 -
11 g2524.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 422 432 -
21 g2524.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 433 457 -
15 g2524.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 458 462 -
22 g2524.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 463 481 -
9 g2524.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 482 492 -
17 g2524.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 493 513 -
14 g2524.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 514 545 -
19 g2524.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 546 567 -
10 g2524.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 568 571 -
30 g2524.t4 ProSitePatterns PS00211 ABC transporters family signature. 144 158 -
32 g2524.t4 ProSiteProfiles PS50893 ATP-binding cassette, ABC transporter-type domain profile. 6 244 17.867
31 g2524.t4 SMART SM00382 AAA_5 36 221 1.8E-9
6 g2524.t4 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 6 243 3.63E-46
28 g2524.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 320 342 -
27 g2524.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 355 377 -
26 g2524.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 397 419 -
29 g2524.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 432 451 -
23 g2524.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 461 483 -
24 g2524.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 490 512 -
25 g2524.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 545 567 -

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:0016020 membrane CC
GO:0005524 ATP binding MF
GO:0042626 ATPase-coupled transmembrane transporter activity 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.

Raw TPM values