Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative ABC transporter G family member 23.

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 g3271 g3271.t2 TTS g3271.t2 24108158 24108158
chr_3 g3271 g3271.t2 isoform g3271.t2 24108207 24114630
chr_3 g3271 g3271.t2 exon g3271.t2.exon1 24108207 24108757
chr_3 g3271 g3271.t2 cds g3271.t2.CDS1 24108207 24108757
chr_3 g3271 g3271.t2 exon g3271.t2.exon2 24112425 24112525
chr_3 g3271 g3271.t2 cds g3271.t2.CDS2 24112425 24112525
chr_3 g3271 g3271.t2 exon g3271.t2.exon3 24112583 24112945
chr_3 g3271 g3271.t2 cds g3271.t2.CDS3 24112583 24112945
chr_3 g3271 g3271.t2 exon g3271.t2.exon4 24113004 24113540
chr_3 g3271 g3271.t2 cds g3271.t2.CDS4 24113004 24113540
chr_3 g3271 g3271.t2 exon g3271.t2.exon5 24113598 24114374
chr_3 g3271 g3271.t2 cds g3271.t2.CDS5 24113598 24114374
chr_3 g3271 g3271.t2 exon g3271.t2.exon6 24114530 24114630
chr_3 g3271 g3271.t2 cds g3271.t2.CDS6 24114530 24114630
chr_3 g3271 g3271.t2 TSS g3271.t2 NA NA

Sequences

>g3271.t2 Gene=g3271 Length=2430
ATGTATAAAAATTCTATTCAAGTTAGAAATGTTTATAAAAATTATCACAAAAAGGAAAAT
ATTTTAAATGGAATAAATTTAACAGTAAAAATTGGAGAAATTTATGCATTGATAGGAGCT
TCAGGATGTGGGAAAACAACTCTTTTGAATTGTATGATGGGAATGTATAAAATTGATAGT
GGAAAAATTGAAATTTTCAATCAAAACGTCGAGTTTAAAAAAACTTCAAAACTTGCAAAT
TCCATTGGTTTTATGTCACAACAAATTTCATTCGTTTCTCAATTAACAATTCAAGAAACT
CTTGAATATTTTGGAAATTTACATTTCATTACACGAAAAGCATTAAAAGAGCGAATTTTG
AGTATTTCTGAATTATTAGAATTACCATCATTAAAAACATTTGTTGGAAATTTATCAAAT
AGTGAAAAAAGACGAGTTTCATTTGCTGCTACAATTATTCACATTCCAAAACTTCTAATC
TTAGATGAACCTACTGTAGGACTTGATTTAGAATTTGGTAACAAAATATGGAATTTTTTT
AATGAACAAACAAGTAAAAATAATTTGACAATTTTAATAACGACTCATTGCATGAATGAA
GTTGCAAAAGCTGATTGTTGTGGTTTTATGATGAATGGAAAATTGATTGTAGAAGAGAAA
CCAAACATTTTATTAGAAAAATTTAATGTAGAAACGCTTTATGAAGTTTATTATTTGCTT
TGTTTAAATTCAAATCAATATCAATTTATATGTGAAGAAAATGATGACAATGCATTGAAA
TTGGAATGTAGAAATACAGAATTTTATACAAAATTCAGATTAAGTATTATCAAAGGAATA
ATAGTTAAAGATTTTCATCGTTTTAAAAGAAGTTTTACGGAAATTTTTCTAATTTTCATG
ACTATGTTTGTATTAAGTTGGCTGCATATAACACTTCTTGGACAATATCCTGATGATATT
AAACTTGGAATAATAAATCATGAAAATTTCAATTGTAAAAATGAAACCGTTCCAAATGAG
TGTGGAAATTTGCATTTTTCATGTTCATTTTTAGGCCAAATCAATGGAGTTAAAAAAATA
TTTTATGAATCAAATCAAAAGGCATTTCAGGATTTTAAAAAAAGTAGAATTTCGAGTTTA
ATGATTATTAATGAAAATTTTACAAATTCCTTGATAAACAAAACTTTTGGGGCTCATGAC
ATTGAAGTTTTTCTTGATTATTCAAAATATCATTTTGCAATTCACCTAAAAATTAAAATT
TTCTTAACTCTTCGTGATTATCTTTTGAATTTAACAAAGCACTGCGAAATCACTGATTAC
TTCATGAATCCATACAAAATTGAAGAATTTCTATCAGTAAAATCAGAATTAGATTTTAAT
TTTTCAATACCATATGCACCTAATGCAATTATTTTATATTCTACCATTGCAATTATGACA
TGTTCAGTTTTAGCAATTATTCAATGCCGTAAATGTGGTGATTGGAATCGAAGTTTACTA
AATGGTGTACAAATAACAGAAATTGTTGCAGCTATTGTGTTTCAATATTTAATTTTTGCT
TTTATCATTTCAATGGAAGCAATTTTTTGCTTGACTTATATTTTTAAAATTGAATTTTTT
GGAAATGTTTGGCTTGCTTTCATATTAATTTATATTTATACCATAAATGCTTTTCTTTTT
GGATTCAATTTATCATTAATTTTAGATGATATCACTTCTGCAGGTTATTTGACAATGTGT
TTATTTTCAAGTTTGAATTATATATCAGGTGTCATTTGGCCATTTGAAAGTATTTCAAAA
ATTATTTCGCCATTTTGTTATATTTTCCCATCAACATTTTCTTGTATCGCTCTACGAGGA
ATTGTTTTCAAAGGTTTTGCTGAGAGTTATACAGCTACCTTCATTCCTCGTGGTGTGACA
ACATTTTTTCCGAACATCATAGCAATACGAATACAAGAAACTGCTCTAGATACACTCTGG
GGTAATGAGTTCAATGAATTTCCAAAATTAAAATATTTAGAGATCATAGAAACAAAGTTA
ACAACAATTTCAAGCAGATTATTTGAAAAACTACCATATATCGGATTCATTTCGTTCAGT
CAAAATTTAATTAAATATACTGGCTATGATTTATTTGCACCAGTCGACATTACTAAACTT
CAAGAACTTTATTTCAATAACAATATATGCATTAACTCTGGAGCTTCATCACAATCGGGA
ATTGTTTCTGTTATTACACAACTAAGACAACAATGCTTGAGACATTGTGCTACTGGAAAT
ATCCAAGAGACAATTTGTGAACTTAAAGATGAAATTGAAATGTTGATTGACCAAATGAGA
AGAATTGTAAATGACAGAAATGATCAAGATGAGAGGATTGCACGTTTAGAAGCAGAACTG
GCAATGAGAGATGCAAAAATGAATTTATGA

>g3271.t2 Gene=g3271 Length=809
MYKNSIQVRNVYKNYHKKENILNGINLTVKIGEIYALIGASGCGKTTLLNCMMGMYKIDS
GKIEIFNQNVEFKKTSKLANSIGFMSQQISFVSQLTIQETLEYFGNLHFITRKALKERIL
SISELLELPSLKTFVGNLSNSEKRRVSFAATIIHIPKLLILDEPTVGLDLEFGNKIWNFF
NEQTSKNNLTILITTHCMNEVAKADCCGFMMNGKLIVEEKPNILLEKFNVETLYEVYYLL
CLNSNQYQFICEENDDNALKLECRNTEFYTKFRLSIIKGIIVKDFHRFKRSFTEIFLIFM
TMFVLSWLHITLLGQYPDDIKLGIINHENFNCKNETVPNECGNLHFSCSFLGQINGVKKI
FYESNQKAFQDFKKSRISSLMIINENFTNSLINKTFGAHDIEVFLDYSKYHFAIHLKIKI
FLTLRDYLLNLTKHCEITDYFMNPYKIEEFLSVKSELDFNFSIPYAPNAIILYSTIAIMT
CSVLAIIQCRKCGDWNRSLLNGVQITEIVAAIVFQYLIFAFIISMEAIFCLTYIFKIEFF
GNVWLAFILIYIYTINAFLFGFNLSLILDDITSAGYLTMCLFSSLNYISGVIWPFESISK
IISPFCYIFPSTFSCIALRGIVFKGFAESYTATFIPRGVTTFFPNIIAIRIQETALDTLW
GNEFNEFPKLKYLEIIETKLTTISSRLFEKLPYIGFISFSQNLIKYTGYDLFAPVDITKL
QELYFNNNICINSGASSQSGIVSVITQLRQQCLRHCATGNIQETICELKDEIEMLIDQMR
RIVNDRNDQDERIARLEAELAMRDAKMNL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
25 g3271.t2 CDD cd03230 ABC_DR_subfamily_A 6 215 3.47621E-46
11 g3271.t2 Coils Coil Coil 779 799 -
9 g3271.t2 Gene3D G3DSA:3.40.50.300 - 1 246 1.3E-55
10 g3271.t2 Gene3D G3DSA:3.80.10.10 Ribonuclease Inhibitor 628 802 3.7E-9
3 g3271.t2 PANTHER PTHR43038 ATP-BINDING CASSETTE, SUB-FAMILY H, MEMBER 1 5 245 5.5E-101
5 g3271.t2 PANTHER PTHR43038:SF2 RH61964P 5 245 5.5E-101
4 g3271.t2 PANTHER PTHR43038 ATP-BINDING CASSETTE, SUB-FAMILY H, MEMBER 1 276 640 5.5E-101
6 g3271.t2 PANTHER PTHR43038:SF2 RH61964P 276 640 5.5E-101
2 g3271.t2 Pfam PF00005 ABC transporter 22 165 9.1E-28
1 g3271.t2 Pfam PF12698 ABC-2 family transporter protein 295 627 1.3E-15
12 g3271.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 294 -
19 g3271.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 295 316 -
18 g3271.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 317 464 -
21 g3271.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 465 487 -
15 g3271.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 488 507 -
24 g3271.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 508 535 -
17 g3271.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 536 540 -
23 g3271.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 541 562 -
14 g3271.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 563 573 -
22 g3271.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 574 595 -
16 g3271.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 596 600 -
20 g3271.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 601 622 -
13 g3271.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 623 809 -
33 g3271.t2 ProSiteProfiles PS50893 ATP-binding cassette, ABC transporter-type domain profile. 6 237 19.541
32 g3271.t2 SMART SM00382 AAA_5 31 222 1.5E-5
8 g3271.t2 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 5 230 1.38E-49
7 g3271.t2 SUPERFAMILY SSF52058 L domain-like 633 728 5.1E-9
31 g3271.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 291 313 -
26 g3271.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 465 487 -
29 g3271.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 508 530 -
28 g3271.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 545 567 -
30 g3271.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 574 596 -
27 g3271.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 601 623 -

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

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