General information for g2807.t1
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.t1 | TSS | g2807.t1 | 20371015 | 20371015 |
| chr_3 | g2807 | g2807.t1 | isoform | g2807.t1 | 20371567 | 20373819 |
| chr_3 | g2807 | g2807.t1 | exon | g2807.t1.exon1 | 20371567 | 20371763 |
| chr_3 | g2807 | g2807.t1 | cds | g2807.t1.CDS1 | 20371567 | 20371763 |
| chr_3 | g2807 | g2807.t1 | exon | g2807.t1.exon2 | 20371826 | 20371974 |
| chr_3 | g2807 | g2807.t1 | cds | g2807.t1.CDS2 | 20371826 | 20371974 |
| chr_3 | g2807 | g2807.t1 | exon | g2807.t1.exon3 | 20372032 | 20372247 |
| chr_3 | g2807 | g2807.t1 | cds | g2807.t1.CDS3 | 20372032 | 20372247 |
| chr_3 | g2807 | g2807.t1 | exon | g2807.t1.exon4 | 20372314 | 20372515 |
| chr_3 | g2807 | g2807.t1 | cds | g2807.t1.CDS4 | 20372314 | 20372515 |
| chr_3 | g2807 | g2807.t1 | exon | g2807.t1.exon5 | 20372576 | 20372683 |
| chr_3 | g2807 | g2807.t1 | cds | g2807.t1.CDS5 | 20372576 | 20372683 |
| chr_3 | g2807 | g2807.t1 | exon | g2807.t1.exon6 | 20372745 | 20373129 |
| chr_3 | g2807 | g2807.t1 | cds | g2807.t1.CDS6 | 20372745 | 20373129 |
| chr_3 | g2807 | g2807.t1 | exon | g2807.t1.exon7 | 20373186 | 20373216 |
| chr_3 | g2807 | g2807.t1 | cds | g2807.t1.CDS7 | 20373186 | 20373216 |
| chr_3 | g2807 | g2807.t1 | exon | g2807.t1.exon8 | 20373278 | 20373819 |
| chr_3 | g2807 | g2807.t1 | cds | g2807.t1.CDS8 | 20373278 | 20373819 |
| chr_3 | g2807 | g2807.t1 | TTS | g2807.t1 | 20374045 | 20374045 |
Sequences
>g2807.t1 Gene=g2807 Length=1830
ATGCCATCTGATTCAAAGAAAAAGGAACAGCAACGAAAAAAGGATGCTCGCAATAAGAAG
ATTAATGAAGCTTCCAAAAAAGAACAGCCTCAATCAAATGGTATTGCAAATGGTAAAGAA
CCCAAAAAAGAATTGACTGAAGAAGAAATTCTTTGTCAAAAATTAGAGGAGGATGCTAGA
TTGGCAGCTGATGCACGTTCATCGACTGGAACACAAGCAAACCATCGTTTATCAAGAGAT
ATTAAAATTGAGAATTTTTCTATCACATTTTATGGCAACGAGATTCTATTAGATACAACT
TTAGAATTGAATTGTGGAAGACGTTATGGTTTAGTTGGTAGTAATGGATGTGGAAAATCG
ACTTTATTGGCTGTTTTAGGAAATCGTGAAGTGCCCATACAAGATTTTATTGACATTTTC
TTCTTGGCTCGTGAAGTTGCAGCTTCTTCGAAAACTGCTTTAGAAATGGTCATGGAAGTC
GATCAAGAGCGTATCAAACTCGAAGCACTTGCAGATGAATTAAGCGGATGTGACGATGAT
GAATCTCAAGAGCAATTGATCGATATTTACGATCGACTGGATGAAATGCAATCTGATTTA
GCCGAAACTAAAGCATCTCGTATTTTACACGGTTTGGGATTTGATAAAGCAATGCAAAGA
AAAGCCTGTCAAGATTTTAGTGGTGGTTGGCGTATGAGAATTGCACTCGCAAGAGCACTC
TATGTGAAACCTCATTTGCTGTTACTTGATGATCCAACTAATCATCTTGATCTCGAAGCA
TGTGTGTGGTTGGAAGAAGAGCTAAAAAATTACAAGAGAATTTTGGTATTGGTATCACAC
TCACAAGATTTTCTTAATGGAGTAACGACCAACATTATTCATATGACAAAAAAGAGATTG
AAGTACTATACTGGTAATTATGACACTTTCGTTAAAACACGTTTAGAACTGCTCACTAAT
CAAATGAAGCAGTACAATTGGGAGCAAGATCAAATTGCTCACATGAAGCAATACATTGCA
CGATTCGGAAAAGGATCTAATGCGAGACAAGCACAATCGAAAGAGAAAGTCCTAGCCAAA
ATGGTGGCAGGTGGTCTAACTGAAAAAAATATCGATGAAAAAACATTGAGTTTCTATTTT
CCCTCATGTCAAAAGCTTCCACCACCGATAATTATGGTTCAAGACGTGTCTTTTCGTTAT
AATGATAAAACACCATATATATACAAGAATTTAGAATTTGGTATTGATTTAGAAACTCGA
TTAGCATTGGTGGGTCCTAACGGTGCCGGAAAATCAACTTTATTGAAGCTTTTGTGTCAA
GAAATTGTTCCAACATCAGGAATGATTAGATGCAATCCACATTTGAAAATTGCAAAATAT
AATCAGCATTTGCATGAACTTCTTGATATGGAAATTAGTCCTTTAGACTATATGCTCAAA
TCGTTCCCCGAGGTTAAAGAAAAAGAAGAGATGAGGAAAATTATTGGCCGATATGGTCTT
ACTGGCAGACAACAAGTATGCCCAATTAGACAACTTTCTGATGGTCAAAGGTGTCGTTTA
GTTTTTGCTTATTTGGCGTTTCAATGTCCACACTTATTATTATTTGATGAACCTAGCAAT
GGACTTGATATGGAAACTATTGATGCTTTAGCAGAAGCCATCAATGAGTTTGAAGGCGGC
ATGGTTCTCGTGTCACACGATTTCCGTTTGATCAATCAGACTGTCTCGGATATATGGATT
TGTGAAAATGGAACTGTCACGAAATGGAATGGAACGATCATGGATTACAAAGAAAACTTG
AAGAAAAATATTTCTAAAGAAGCTCGATAA
>g2807.t1 Gene=g2807 Length=609
MPSDSKKKEQQRKKDARNKKINEASKKEQPQSNGIANGKEPKKELTEEEILCQKLEEDAR
LAADARSSTGTQANHRLSRDIKIENFSITFYGNEILLDTTLELNCGRRYGLVGSNGCGKS
TLLAVLGNREVPIQDFIDIFFLAREVAASSKTALEMVMEVDQERIKLEALADELSGCDDD
ESQEQLIDIYDRLDEMQSDLAETKASRILHGLGFDKAMQRKACQDFSGGWRMRIALARAL
YVKPHLLLLDDPTNHLDLEACVWLEEELKNYKRILVLVSHSQDFLNGVTTNIIHMTKKRL
KYYTGNYDTFVKTRLELLTNQMKQYNWEQDQIAHMKQYIARFGKGSNARQAQSKEKVLAK
MVAGGLTEKNIDEKTLSFYFPSCQKLPPPIIMVQDVSFRYNDKTPYIYKNLEFGIDLETR
LALVGPNGAGKSTLLKLLCQEIVPTSGMIRCNPHLKIAKYNQHLHELLDMEISPLDYMLK
SFPEVKEKEEMRKIIGRYGLTGRQQVCPIRQLSDGQRCRLVFAYLAFQCPHLLLFDEPSN
GLDMETIDALAEAINEFEGGMVLVSHDFRLINQTVSDIWICENGTVTKWNGTIMDYKENL
KKNISKEAR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g2807.t1 | CDD | cd03221 | ABCF_EF-3 | 81 | 299 | 1.05145E-44 |
| 11 | g2807.t1 | CDD | cd03221 | ABCF_EF-3 | 391 | 585 | 8.20836E-46 |
| 10 | g2807.t1 | Coils | Coil | Coil | 7 | 27 | - |
| 9 | g2807.t1 | Gene3D | G3DSA:3.40.50.300 | - | 47 | 335 | 4.6E-50 |
| 8 | g2807.t1 | Gene3D | G3DSA:3.40.50.300 | - | 356 | 609 | 2.5E-48 |
| 16 | g2807.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 44 | - |
| 17 | g2807.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 26 | - |
| 4 | g2807.t1 | PANTHER | PTHR19211 | ATP-BINDING TRANSPORT PROTEIN-RELATED | 1 | 607 | 2.6E-265 |
| 5 | g2807.t1 | PANTHER | PTHR19211:SF15 | ATP-BINDING CASSETTE SUB-FAMILY F MEMBER 2 | 1 | 607 | 2.6E-265 |
| 3 | g2807.t1 | Pfam | PF00005 | ABC transporter | 98 | 254 | 6.9E-21 |
| 1 | g2807.t1 | Pfam | PF12848 | ABC transporter | 293 | 363 | 2.7E-22 |
| 2 | g2807.t1 | Pfam | PF00005 | ABC transporter | 408 | 540 | 2.8E-20 |
| 15 | g2807.t1 | ProSitePatterns | PS00211 | ABC transporters family signature. | 226 | 240 | - |
| 18 | g2807.t1 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 81 | 322 | 15.466 |
| 19 | g2807.t1 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 391 | 608 | 14.132 |
| 13 | g2807.t1 | SMART | SM00382 | AAA_5 | 105 | 299 | 1.6E-9 |
| 14 | g2807.t1 | SMART | SM00382 | AAA_5 | 417 | 585 | 1.1E-8 |
| 6 | g2807.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 76 | 334 | 5.33E-40 |
| 7 | g2807.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 371 | 590 | 6.5E-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.
