General information for g2807.t20
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as ATP-binding cassette sub-family F member 2.
Parent gene
- The parent gene g2807 is located on chr_3: 20373127..20374057 (+ strand)
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.t20 | isoform | g2807.t20 | 20373127 | 20373819 |
| chr_3 | g2807 | g2807.t20 | exon | g2807.t20.exon1 | 20373127 | 20373129 |
| chr_3 | g2807 | g2807.t20 | exon | g2807.t20.exon2 | 20373244 | 20373819 |
| chr_3 | g2807 | g2807.t20 | cds | g2807.t20.CDS1 | 20373331 | 20373819 |
| chr_3 | g2807 | g2807.t20 | TTS | g2807.t20 | 20374045 | 20374045 |
| chr_3 | g2807 | g2807.t20 | TSS | g2807.t20 | NA | NA |
Sequences
>g2807.t20 Gene=g2807 Length=579
ACTCATTTTAATATTGATTGATTATTGTTATACACAGGAAAATCAACTTTATTGAAGCTT
TTGTGTCAAGAAATTGTTCCAACATCAGGAATGATTAGATGCAATCCACATTTGAAAATT
GCAAAATATAATCAGCATTTGCATGAACTTCTTGATATGGAAATTAGTCCTTTAGACTAT
ATGCTCAAATCGTTCCCCGAGGTTAAAGAAAAAGAAGAGATGAGGAAAATTATTGGCCGA
TATGGTCTTACTGGCAGACAACAAGTATGCCCAATTAGACAACTTTCTGATGGTCAAAGG
TGTCGTTTAGTTTTTGCTTATTTGGCGTTTCAATGTCCACACTTATTATTATTTGATGAA
CCTAGCAATGGACTTGATATGGAAACTATTGATGCTTTAGCAGAAGCCATCAATGAGTTT
GAAGGCGGCATGGTTCTCGTGTCACACGATTTCCGTTTGATCAATCAGACTGTCTCGGAT
ATATGGATTTGTGAAAATGGAACTGTCACGAAATGGAATGGAACGATCATGGATTACAAA
GAAAACTTGAAGAAAAATATTTCTAAAGAAGCTCGATAA
>g2807.t20 Gene=g2807 Length=162
MIRCNPHLKIAKYNQHLHELLDMEISPLDYMLKSFPEVKEKEEMRKIIGRYGLTGRQQVC
PIRQLSDGQRCRLVFAYLAFQCPHLLLFDEPSNGLDMETIDALAEAINEFEGGMVLVSHD
FRLINQTVSDIWICENGTVTKWNGTIMDYKENLKKNISKEAR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g2807.t20 | CDD | cd03221 | ABCF_EF-3 | 42 | 138 | 0e+00 |
| 5 | g2807.t20 | Gene3D | G3DSA:3.40.50.300 | - | 3 | 162 | 0e+00 |
| 2 | g2807.t20 | PANTHER | PTHR19211 | ATP-BINDING TRANSPORT PROTEIN-RELATED | 1 | 160 | 0e+00 |
| 3 | g2807.t20 | PANTHER | PTHR19211:SF15 | ATP-BINDING CASSETTE SUB-FAMILY F MEMBER 2 | 1 | 160 | 0e+00 |
| 1 | g2807.t20 | Pfam | PF13304 | AAA domain, putative AbiEii toxin, Type IV TA system | 32 | 120 | 6e-07 |
| 4 | g2807.t20 | 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.
