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 g2679 g2679.t2 TSS g2679.t2 19689909 19689909
chr_3 g2679 g2679.t2 isoform g2679.t2 19689985 19690814
chr_3 g2679 g2679.t2 exon g2679.t2.exon1 19689985 19690814
chr_3 g2679 g2679.t2 cds g2679.t2.CDS1 19689985 19690812
chr_3 g2679 g2679.t2 TTS g2679.t2 NA NA

Sequences

>g2679.t2 Gene=g2679 Length=830
ATGATGAACAATCTTAGTATTAAATTTGATAATTTAACATACCGTGCGCGAAGGTATGGT
TTCTTTAAAAAGGAAGAAAAGACAATTTTAAATGGAATAAGTGGTGAATTTCGTGAACAT
GAATTAAGTGCTATTCTGGGGCCATCGGGATGTGGAAAATCATCGCTGCTTAATATTTTG
TCTACTTTCATGACTGATGGAATCTCTGGGTCAATTACGATTAACAATGAACATTGGAAT
AAGACAAAATTTAAGAAAAAGTTTGCTTATATCATGCAAGAAGAGAATTTGCATGCTGTT
TTAACTGTCAAAGAAGCAATGAATTACTCAATTAAACTTAAAACAGGCAAATCATTGACC
GAGAAGCAGCAGCAAGAAAAAATTATTTCAATTTTGGACACACTTAAATTGAGTAATCGC
TTGAACACTTATACGCAGCACTTAAGTGGCGGTCAGCAAAAAAGATTATCGATTGCGCTA
GAATTAGTTGATGATCCACAAGTACTTTTTCTAGATGAATGCACAACAGGCCTTGATTCT
GTAGCATCAACGCAGTGTATTCAATTTCTAAAAAAACTTTCCACTCAAGGAAGAACCGTC
ATTTGCACAATTCACACACCAAGTGCATTAATGTTTGAAATGTTCGATCATATTTACGCA
ATGGCGAGGGGTGAATGTATCTATCAAGGCTCGAGTCAAAATCTCGTTCCATTCTTGAAA
GAACTTGATCTTATCTGTCCAAGCACTTACAATCCCGCTGATTTTCTCCTTGAAATTGCC
AATAATGATTATGGAGCACAAAATTCACGTCTAACAGAAACGATAGAAAA

>g2679.t2 Gene=g2679 Length=276
MMNNLSIKFDNLTYRARRYGFFKKEEKTILNGISGEFREHELSAILGPSGCGKSSLLNIL
STFMTDGISGSITINNEHWNKTKFKKKFAYIMQEENLHAVLTVKEAMNYSIKLKTGKSLT
EKQQQEKIISILDTLKLSNRLNTYTQHLSGGQQKRLSIALELVDDPQVLFLDECTTGLDS
VASTQCIQFLKKLSTQGRTVICTIHTPSALMFEMFDHIYAMARGECIYQGSSQNLVPFLK
ELDLICPSTYNPADFLLEIANNDYGAQNSRLTETIE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g2679.t2 Coils Coil Coil 275 276 -
6 g2679.t2 Gene3D G3DSA:3.40.50.300 - 1 241 9.0E-57
3 g2679.t2 PANTHER PTHR48041:SF78 ABC TRANSPORTER EXPRESSED IN TRACHEA, ISOFORM A-RELATED 4 275 3.1E-106
4 g2679.t2 PANTHER PTHR48041 ABC TRANSPORTER G FAMILY MEMBER 28 4 275 3.1E-106
2 g2679.t2 Pfam PF00005 ABC transporter 30 175 4.4E-28
1 g2679.t2 Pfam PF19055 ABC-2 type transporter 205 261 4.7E-6
8 g2679.t2 ProSitePatterns PS00211 ABC transporters family signature. 148 162 -
10 g2679.t2 ProSiteProfiles PS50893 ATP-binding cassette, ABC transporter-type domain profile. 7 248 19.428
9 g2679.t2 SMART SM00382 AAA_5 39 225 4.3E-12
5 g2679.t2 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 7 246 1.49E-48

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: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. There were no conditions that were differentially expressed