General information for g2807.t13
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.t13 | TSS | g2807.t13 | 20371015 | 20371015 |
| chr_3 | g2807 | g2807.t13 | isoform | g2807.t13 | 20372034 | 20373819 |
| chr_3 | g2807 | g2807.t13 | exon | g2807.t13.exon1 | 20372034 | 20372247 |
| chr_3 | g2807 | g2807.t13 | cds | g2807.t13.CDS1 | 20372151 | 20372247 |
| chr_3 | g2807 | g2807.t13 | exon | g2807.t13.exon2 | 20372314 | 20372515 |
| chr_3 | g2807 | g2807.t13 | cds | g2807.t13.CDS2 | 20372314 | 20372515 |
| chr_3 | g2807 | g2807.t13 | exon | g2807.t13.exon3 | 20372576 | 20372683 |
| chr_3 | g2807 | g2807.t13 | cds | g2807.t13.CDS3 | 20372576 | 20372683 |
| chr_3 | g2807 | g2807.t13 | exon | g2807.t13.exon4 | 20372745 | 20373129 |
| chr_3 | g2807 | g2807.t13 | cds | g2807.t13.CDS4 | 20372745 | 20373129 |
| chr_3 | g2807 | g2807.t13 | exon | g2807.t13.exon5 | 20373186 | 20373216 |
| chr_3 | g2807 | g2807.t13 | cds | g2807.t13.CDS5 | 20373186 | 20373216 |
| chr_3 | g2807 | g2807.t13 | exon | g2807.t13.exon6 | 20373278 | 20373819 |
| chr_3 | g2807 | g2807.t13 | cds | g2807.t13.CDS6 | 20373278 | 20373819 |
| chr_3 | g2807 | g2807.t13 | TTS | g2807.t13 | 20374045 | 20374045 |
Sequences
>g2807.t13 Gene=g2807 Length=1482
TGTGGAAAATCGACTTTATTGGCTGTTTTAGGAAATCGTGAAGTGCCCATACAAGATTTT
ATTGACATTTTCTTCTTGGCTCGTGAAGTTGCAGCTTCTTCGAAAACTGCTTTAGAAATG
GTCATGGAAGTCGATCAAGAGCGTATCAAACTCGAAGCACTTGCAGATGAATTAAGCGGA
TGTGACGATGATGAATCTCAAGAGCAATTGATCGATATTTACGATCGACTGGATGAAATG
CAATCTGATTTAGCCGAAACTAAAGCATCTCGTATTTTACACGGTTTGGGATTTGATAAA
GCAATGCAAAGAAAAGCCTGTCAAGATTTTAGTGGTGGTTGGCGTATGAGAATTGCACTC
GCAAGAGCACTCTATGTGAAACCTCATTTGCTGTTACTTGATGATCCAACTAATCATCTT
GATCTCGAAGCATGTGTGTGGTTGGAAGAAGAGCTAAAAAATTACAAGAGAATTTTGGTA
TTGGTATCACACTCACAAGATTTTCTTAATGGAGTAACGACCAACATTATTCATATGACA
AAAAAGAGATTGAAGTACTATACTGGTAATTATGACACTTTCGTTAAAACACGTTTAGAA
CTGCTCACTAATCAAATGAAGCAGTACAATTGGGAGCAAGATCAAATTGCTCACATGAAG
CAATACATTGCACGATTCGGAAAAGGATCTAATGCGAGACAAGCACAATCGAAAGAGAAA
GTCCTAGCCAAAATGGTGGCAGGTGGTCTAACTGAAAAAAATATCGATGAAAAAACATTG
AGTTTCTATTTTCCCTCATGTCAAAAGCTTCCACCACCGATAATTATGGTTCAAGACGTG
TCTTTTCGTTATAATGATAAAACACCATATATATACAAGAATTTAGAATTTGGTATTGAT
TTAGAAACTCGATTAGCATTGGTGGGTCCTAACGGTGCCGGAAAATCAACTTTATTGAAG
CTTTTGTGTCAAGAAATTGTTCCAACATCAGGAATGATTAGATGCAATCCACATTTGAAA
ATTGCAAAATATAATCAGCATTTGCATGAACTTCTTGATATGGAAATTAGTCCTTTAGAC
TATATGCTCAAATCGTTCCCCGAGGTTAAAGAAAAAGAAGAGATGAGGAAAATTATTGGC
CGATATGGTCTTACTGGCAGACAACAAGTATGCCCAATTAGACAACTTTCTGATGGTCAA
AGGTGTCGTTTAGTTTTTGCTTATTTGGCGTTTCAATGTCCACACTTATTATTATTTGAT
GAACCTAGCAATGGACTTGATATGGAAACTATTGATGCTTTAGCAGAAGCCATCAATGAG
TTTGAAGGCGGCATGGTTCTCGTGTCACACGATTTCCGTTTGATCAATCAGACTGTCTCG
GATATATGGATTTGTGAAAATGGAACTGTCACGAAATGGAATGGAACGATCATGGATTAC
AAAGAAAACTTGAAGAAAAATATTTCTAAAGAAGCTCGATAA
>g2807.t13 Gene=g2807 Length=454
MVMEVDQERIKLEALADELSGCDDDESQEQLIDIYDRLDEMQSDLAETKASRILHGLGFD
KAMQRKACQDFSGGWRMRIALARALYVKPHLLLLDDPTNHLDLEACVWLEEELKNYKRIL
VLVSHSQDFLNGVTTNIIHMTKKRLKYYTGNYDTFVKTRLELLTNQMKQYNWEQDQIAHM
KQYIARFGKGSNARQAQSKEKVLAKMVAGGLTEKNIDEKTLSFYFPSCQKLPPPIIMVQD
VSFRYNDKTPYIYKNLEFGIDLETRLALVGPNGAGKSTLLKLLCQEIVPTSGMIRCNPHL
KIAKYNQHLHELLDMEISPLDYMLKSFPEVKEKEEMRKIIGRYGLTGRQQVCPIRQLSDG
QRCRLVFAYLAFQCPHLLLFDEPSNGLDMETIDALAEAINEFEGGMVLVSHDFRLINQTV
SDIWICENGTVTKWNGTIMDYKENLKKNISKEAR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g2807.t13 | CDD | cd03221 | ABCF_EF-3 | 71 | 144 | 0.000 |
| 12 | g2807.t13 | CDD | cd03221 | ABCF_EF-3 | 236 | 430 | 0.000 |
| 9 | g2807.t13 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 193 | 0.000 |
| 10 | g2807.t13 | Gene3D | G3DSA:3.40.50.300 | - | 200 | 454 | 0.000 |
| 4 | g2807.t13 | PANTHER | PTHR19211 | ATP-BINDING TRANSPORT PROTEIN-RELATED | 2 | 452 | 0.000 |
| 5 | g2807.t13 | PANTHER | PTHR19211:SF15 | ATP-BINDING CASSETTE SUB-FAMILY F MEMBER 2 | 2 | 452 | 0.000 |
| 2 | g2807.t13 | Pfam | PF00005 | ABC transporter | 30 | 99 | 0.000 |
| 1 | g2807.t13 | Pfam | PF12848 | ABC transporter | 138 | 208 | 0.000 |
| 3 | g2807.t13 | Pfam | PF00005 | ABC transporter | 253 | 385 | 0.000 |
| 11 | g2807.t13 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 236 | 453 | 14.132 |
| 8 | g2807.t13 | SMART | SM00382 | AAA_5 | 262 | 430 | 0.000 |
| 6 | g2807.t13 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 45 | 180 | 0.000 |
| 7 | g2807.t13 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 216 | 435 | 0.000 |
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 transcript has been annotated with K06185 (ATP-binding cassette, subfamily F, member 2)
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.
