Gene loci information

Transcript annotation

  • This transcript has been annotated as ATP-binding cassette sub-family F member 2.

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 g2807 g2807.t15 isoform g2807.t15 20372578 20374057
chr_3 g2807 g2807.t15 exon g2807.t15.exon1 20372578 20374057
chr_3 g2807 g2807.t15 cds g2807.t15.CDS1 20373331 20373819
chr_3 g2807 g2807.t15 TTS g2807.t15 20374045 20374045
chr_3 g2807 g2807.t15 TSS g2807.t15 NA NA

Sequences

>g2807.t15 Gene=g2807 Length=1480
TTGATCTCGAAGCATGTGTGTGGTTGGAAGAAGAGCTAAAAAATTACAAGAGAATTTTGG
TATTGGTATCACACTCACAAGATTTTCTTAATGGAGTAACGACCAAGTATGTATTATTTT
ATTTTTATATAATTAGTTAAATTTATAAATATATATATTTTTTTAAGCATTATTCATATG
ACAAAAAAGAGATTGAAGTACTATACTGGTAATTATGACACTTTCGTTAAAACACGTTTA
GAACTGCTCACTAATCAAATGAAGCAGTACAATTGGGAGCAAGATCAAATTGCTCACATG
AAGCAATACATTGCACGATTCGGAAAAGGATCTAATGCGAGACAAGCACAATCGAAAGAG
AAAGTCCTAGCCAAAATGGTGGCAGGTGGTCTAACTGAAAAAAATATCGATGAAAAAACA
TTGAGTTTCTATTTTCCCTCATGTCAAAAGCTTCCACCACCGATAATTATGGTTCAAGAC
GTGTCTTTTCGTTATAATGATAAAACACCATATATATACAAGAATTTAGAATTTGGTATT
GATTTAGAAACTGTAAGTTGTTCTATAAAATTGATTAAAATGATTTTAATTAATTACTTA
AATTTTAGCGATTAGCATTGGTGGGTCCTAACGGTGCCGGTAAGTGTTATTTAAAAGATT
TTTTACCATTTTAATATTGATTGATTATTGTTATACACAGGAAAATCAACTTTATTGAAG
CTTTTGTGTCAAGAAATTGTTCCAACATCAGGAATGATTAGATGCAATCCACATTTGAAA
ATTGCAAAATATAATCAGCATTTGCATGAACTTCTTGATATGGAAATTAGTCCTTTAGAC
TATATGCTCAAATCGTTCCCCGAGGTTAAAGAAAAAGAAGAGATGAGGAAAATTATTGGC
CGATATGGTCTTACTGGCAGACAACAAGTATGCCCAATTAGACAACTTTCTGATGGTCAA
AGGTGTCGTTTAGTTTTTGCTTATTTGGCGTTTCAATGTCCACACTTATTATTATTTGAT
GAACCTAGCAATGGACTTGATATGGAAACTATTGATGCTTTAGCAGAAGCCATCAATGAG
TTTGAAGGCGGCATGGTTCTCGTGTCACACGATTTCCGTTTGATCAATCAGACTGTCTCG
GATATATGGATTTGTGAAAATGGAACTGTCACGAAATGGAATGGAACGATCATGGATTAC
AAAGAAAACTTGAAGAAAAATATTTCTAAAGAAGCTCGATAAATGAGAACTGCACACGCA
AATACATTTTTTTCTCTGATCTTCATATGCAAATATATTTAACAAAAATTTTTATTTTTA
ACAAACGTATGCTTGTTGCAAGAATTTTCGTAACTTGTAAATGTTATAATTTATTGAATT
ATGAAGTTATTATCATATCAAATTATGCGAGAATGTTAATTATTAATGAAACATCTGAAA
TTAATAAATCCGTCACGTTAGCAAAACTCAATTCATGTTT

>g2807.t15 Gene=g2807 Length=162
MIRCNPHLKIAKYNQHLHELLDMEISPLDYMLKSFPEVKEKEEMRKIIGRYGLTGRQQVC
PIRQLSDGQRCRLVFAYLAFQCPHLLLFDEPSNGLDMETIDALAEAINEFEGGMVLVSHD
FRLINQTVSDIWICENGTVTKWNGTIMDYKENLKKNISKEAR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g2807.t15 CDD cd03221 ABCF_EF-3 42 138 0e+00
5 g2807.t15 Gene3D G3DSA:3.40.50.300 - 3 162 0e+00
2 g2807.t15 PANTHER PTHR19211 ATP-BINDING TRANSPORT PROTEIN-RELATED 1 160 0e+00
3 g2807.t15 PANTHER PTHR19211:SF15 ATP-BINDING CASSETTE SUB-FAMILY F MEMBER 2 1 160 0e+00
1 g2807.t15 Pfam PF13304 AAA domain, putative AbiEii toxin, Type IV TA system 32 120 6e-07
4 g2807.t15 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 12 139 0e+00

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.

Raw TPM values