General information for g2807.t3
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.t3 | isoform | g2807.t3 | 20370884 | 20373819 |
| chr_3 | g2807 | g2807.t3 | exon | g2807.t3.exon1 | 20370884 | 20371148 |
| chr_3 | g2807 | g2807.t3 | exon | g2807.t3.exon2 | 20371541 | 20371763 |
| chr_3 | g2807 | g2807.t3 | cds | g2807.t3.CDS1 | 20371567 | 20371763 |
| chr_3 | g2807 | g2807.t3 | exon | g2807.t3.exon3 | 20371826 | 20371968 |
| chr_3 | g2807 | g2807.t3 | cds | g2807.t3.CDS2 | 20371826 | 20371968 |
| chr_3 | g2807 | g2807.t3 | exon | g2807.t3.exon4 | 20372032 | 20372247 |
| chr_3 | g2807 | g2807.t3 | cds | g2807.t3.CDS3 | 20372032 | 20372247 |
| chr_3 | g2807 | g2807.t3 | exon | g2807.t3.exon5 | 20372314 | 20372515 |
| chr_3 | g2807 | g2807.t3 | cds | g2807.t3.CDS4 | 20372314 | 20372515 |
| chr_3 | g2807 | g2807.t3 | exon | g2807.t3.exon6 | 20372576 | 20372683 |
| chr_3 | g2807 | g2807.t3 | cds | g2807.t3.CDS5 | 20372576 | 20372683 |
| chr_3 | g2807 | g2807.t3 | exon | g2807.t3.exon7 | 20372745 | 20373129 |
| chr_3 | g2807 | g2807.t3 | cds | g2807.t3.CDS6 | 20372745 | 20373129 |
| chr_3 | g2807 | g2807.t3 | exon | g2807.t3.exon8 | 20373186 | 20373216 |
| chr_3 | g2807 | g2807.t3 | cds | g2807.t3.CDS7 | 20373186 | 20373216 |
| chr_3 | g2807 | g2807.t3 | exon | g2807.t3.exon9 | 20373278 | 20373819 |
| chr_3 | g2807 | g2807.t3 | cds | g2807.t3.CDS8 | 20373278 | 20373819 |
| chr_3 | g2807 | g2807.t3 | TTS | g2807.t3 | 20374045 | 20374045 |
| chr_3 | g2807 | g2807.t3 | TSS | g2807.t3 | NA | NA |
Sequences
>g2807.t3 Gene=g2807 Length=2115
TTTTTATTGGATTTTCTTTAATTTTTCACTTTTTACAAATTCAAACTTTTATAATCGCTT
CTCACGATTTTTTTGTTGTTATTATTTTCACTTCACTTGTTATTCCCATCATTTCTTTTT
TTGTTTTTCAAAGTTAGTCGCCCCCTAACTTTTTTCGCTAGTTGAAAAATTAAAATTTCA
TTAATTCTCTGTAAAACGCTATCGAAAAAAAATACGGTATTGATTAATATATAATTGGGC
GTGTATTAAAAGTATCTCATTAAAGTAACCTAATTTAAAGGAAGAAGAAAAATGCCATCT
GATTCAAAGAAAAAGGAACAGCAACGAAAAAAGGATGCTCGCAATAAGAAGATTAATGAA
GCTTCCAAAAAAGAACAGCCTCAATCAAATGGTATTGCAAATGGTAAAGAACCCAAAAAA
GAATTGACTGAAGAAGAAATTCTTTGTCAAAAATTAGAGGAGGATGCTAGATTGGCAGCT
GATGCACGTTCATCGACTGGAACACAAGCAAACCATCGTTTATCAAGAGATATTAAAATT
GAGAATTTTTCTATCACATTTTATGGCAACGAGATTCTATTAGATACAACTTTAGAATTG
AATTGTGGAAGACGTTATGGTTTAGTTGGTAGATGTGGAAAATCGACTTTATTGGCTGTT
TTAGGAAATCGTGAAGTGCCCATACAAGATTTTATTGACATTTTCTTCTTGGCTCGTGAA
GTTGCAGCTTCTTCGAAAACTGCTTTAGAAATGGTCATGGAAGTCGATCAAGAGCGTATC
AAACTCGAAGCACTTGCAGATGAATTAAGCGGATGTGACGATGATGAATCTCAAGAGCAA
TTGATCGATATTTACGATCGACTGGATGAAATGCAATCTGATTTAGCCGAAACTAAAGCA
TCTCGTATTTTACACGGTTTGGGATTTGATAAAGCAATGCAAAGAAAAGCCTGTCAAGAT
TTTAGTGGTGGTTGGCGTATGAGAATTGCACTCGCAAGAGCACTCTATGTGAAACCTCAT
TTGCTGTTACTTGATGATCCAACTAATCATCTTGATCTCGAAGCATGTGTGTGGTTGGAA
GAAGAGCTAAAAAATTACAAGAGAATTTTGGTATTGGTATCACACTCACAAGATTTTCTT
AATGGAGTAACGACCAACATTATTCATATGACAAAAAAGAGATTGAAGTACTATACTGGT
AATTATGACACTTTCGTTAAAACACGTTTAGAACTGCTCACTAATCAAATGAAGCAGTAC
AATTGGGAGCAAGATCAAATTGCTCACATGAAGCAATACATTGCACGATTCGGAAAAGGA
TCTAATGCGAGACAAGCACAATCGAAAGAGAAAGTCCTAGCCAAAATGGTGGCAGGTGGT
CTAACTGAAAAAAATATCGATGAAAAAACATTGAGTTTCTATTTTCCCTCATGTCAAAAG
CTTCCACCACCGATAATTATGGTTCAAGACGTGTCTTTTCGTTATAATGATAAAACACCA
TATATATACAAGAATTTAGAATTTGGTATTGATTTAGAAACTCGATTAGCATTGGTGGGT
CCTAACGGTGCCGGAAAATCAACTTTATTGAAGCTTTTGTGTCAAGAAATTGTTCCAACA
TCAGGAATGATTAGATGCAATCCACATTTGAAAATTGCAAAATATAATCAGCATTTGCAT
GAACTTCTTGATATGGAAATTAGTCCTTTAGACTATATGCTCAAATCGTTCCCCGAGGTT
AAAGAAAAAGAAGAGATGAGGAAAATTATTGGCCGATATGGTCTTACTGGCAGACAACAA
GTATGCCCAATTAGACAACTTTCTGATGGTCAAAGGTGTCGTTTAGTTTTTGCTTATTTG
GCGTTTCAATGTCCACACTTATTATTATTTGATGAACCTAGCAATGGACTTGATATGGAA
ACTATTGATGCTTTAGCAGAAGCCATCAATGAGTTTGAAGGCGGCATGGTTCTCGTGTCA
CACGATTTCCGTTTGATCAATCAGACTGTCTCGGATATATGGATTTGTGAAAATGGAACT
GTCACGAAATGGAATGGAACGATCATGGATTACAAAGAAAACTTGAAGAAAAATATTTCT
AAAGAAGCTCGATAA
>g2807.t3 Gene=g2807 Length=607
MPSDSKKKEQQRKKDARNKKINEASKKEQPQSNGIANGKEPKKELTEEEILCQKLEEDAR
LAADARSSTGTQANHRLSRDIKIENFSITFYGNEILLDTTLELNCGRRYGLVGRCGKSTL
LAVLGNREVPIQDFIDIFFLAREVAASSKTALEMVMEVDQERIKLEALADELSGCDDDES
QEQLIDIYDRLDEMQSDLAETKASRILHGLGFDKAMQRKACQDFSGGWRMRIALARALYV
KPHLLLLDDPTNHLDLEACVWLEEELKNYKRILVLVSHSQDFLNGVTTNIIHMTKKRLKY
YTGNYDTFVKTRLELLTNQMKQYNWEQDQIAHMKQYIARFGKGSNARQAQSKEKVLAKMV
AGGLTEKNIDEKTLSFYFPSCQKLPPPIIMVQDVSFRYNDKTPYIYKNLEFGIDLETRLA
LVGPNGAGKSTLLKLLCQEIVPTSGMIRCNPHLKIAKYNQHLHELLDMEISPLDYMLKSF
PEVKEKEEMRKIIGRYGLTGRQQVCPIRQLSDGQRCRLVFAYLAFQCPHLLLFDEPSNGL
DMETIDALAEAINEFEGGMVLVSHDFRLINQTVSDIWICENGTVTKWNGTIMDYKENLKK
NISKEAR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g2807.t3 | CDD | cd03221 | ABCF_EF-3 | 81 | 297 | 2.33148E-41 |
| 12 | g2807.t3 | CDD | cd03221 | ABCF_EF-3 | 389 | 583 | 7.77002E-46 |
| 10 | g2807.t3 | Coils | Coil | Coil | 7 | 27 | - |
| 8 | g2807.t3 | Gene3D | G3DSA:3.40.50.300 | - | 47 | 333 | 3.2E-45 |
| 9 | g2807.t3 | Gene3D | G3DSA:3.40.50.300 | - | 354 | 607 | 2.5E-48 |
| 16 | g2807.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 26 | - |
| 17 | g2807.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 45 | - |
| 4 | g2807.t3 | PANTHER | PTHR19211 | ATP-BINDING TRANSPORT PROTEIN-RELATED | 1 | 605 | 7.8E-261 |
| 5 | g2807.t3 | PANTHER | PTHR19211:SF15 | ATP-BINDING CASSETTE SUB-FAMILY F MEMBER 2 | 1 | 605 | 7.8E-261 |
| 2 | g2807.t3 | Pfam | PF00005 | ABC transporter | 98 | 252 | 7.0E-16 |
| 1 | g2807.t3 | Pfam | PF12848 | ABC transporter | 291 | 361 | 2.7E-22 |
| 3 | g2807.t3 | Pfam | PF00005 | ABC transporter | 406 | 538 | 2.7E-20 |
| 15 | g2807.t3 | ProSitePatterns | PS00211 | ABC transporters family signature. | 224 | 238 | - |
| 19 | g2807.t3 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 81 | 320 | 12.992 |
| 18 | g2807.t3 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 389 | 606 | 14.132 |
| 14 | g2807.t3 | SMART | SM00382 | AAA_5 | 105 | 297 | 0.0048 |
| 13 | g2807.t3 | SMART | SM00382 | AAA_5 | 415 | 583 | 1.1E-8 |
| 6 | g2807.t3 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 76 | 332 | 9.31E-35 |
| 7 | g2807.t3 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 369 | 588 | 6.41E-40 |
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 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.
