General information for g6040.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as ATP-binding cassette sub-family G member 1.
Parent gene
- The parent gene g6040 is located on chr_2: 13781583..13789462 (+ 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_2 | g6040 | g6040.t1 | TSS | g6040.t1 | 13765719 | 13765719 |
| chr_2 | g6040 | g6040.t1 | isoform | g6040.t1 | 13765977 | 13781583 |
| chr_2 | g6040 | g6040.t1 | exon | g6040.t1.exon1 | 13765977 | 13766005 |
| chr_2 | g6040 | g6040.t1 | cds | g6040.t1.CDS1 | 13765977 | 13766005 |
| chr_2 | g6040 | g6040.t1 | exon | g6040.t1.exon2 | 13773151 | 13773293 |
| chr_2 | g6040 | g6040.t1 | cds | g6040.t1.CDS2 | 13773151 | 13773293 |
| chr_2 | g6040 | g6040.t1 | exon | g6040.t1.exon3 | 13777383 | 13777449 |
| chr_2 | g6040 | g6040.t1 | cds | g6040.t1.CDS3 | 13777383 | 13777449 |
| chr_2 | g6040 | g6040.t1 | exon | g6040.t1.exon4 | 13777514 | 13777564 |
| chr_2 | g6040 | g6040.t1 | cds | g6040.t1.CDS4 | 13777514 | 13777564 |
| chr_2 | g6040 | g6040.t1 | exon | g6040.t1.exon5 | 13778403 | 13778592 |
| chr_2 | g6040 | g6040.t1 | cds | g6040.t1.CDS5 | 13778403 | 13778592 |
| chr_2 | g6040 | g6040.t1 | exon | g6040.t1.exon6 | 13778963 | 13779082 |
| chr_2 | g6040 | g6040.t1 | cds | g6040.t1.CDS6 | 13778963 | 13779082 |
| chr_2 | g6040 | g6040.t1 | exon | g6040.t1.exon7 | 13779139 | 13779834 |
| chr_2 | g6040 | g6040.t1 | cds | g6040.t1.CDS7 | 13779139 | 13779834 |
| chr_2 | g6040 | g6040.t1 | exon | g6040.t1.exon8 | 13779899 | 13780067 |
| chr_2 | g6040 | g6040.t1 | cds | g6040.t1.CDS8 | 13779899 | 13780067 |
| chr_2 | g6040 | g6040.t1 | exon | g6040.t1.exon9 | 13780856 | 13780956 |
| chr_2 | g6040 | g6040.t1 | cds | g6040.t1.CDS9 | 13780856 | 13780956 |
| chr_2 | g6040 | g6040.t1 | exon | g6040.t1.exon10 | 13781083 | 13781583 |
| chr_2 | g6040 | g6040.t1 | cds | g6040.t1.CDS10 | 13781083 | 13781583 |
| chr_2 | g6040 | g6040.t1 | TTS | g6040.t1 | NA | NA |
Sequences
>g6040.t1 Gene=g6040 Length=2067
ATGGAAGATATTGTGTTAATTAATAACAGGAAAAACCTGGTTGGAACATCATCGACAAAA
ATACAAATTGTTCCAGCACAACCAAAGACGTTGACACATTTACCATCAAGACCACCGGTT
GAATTAGCTTTCAAGGATTTAACTTATCGTGTTAAGGAAGGACGTTCTAATAATGTTAAA
ACAATTCTCAAAGAAGTTAGCGGTCGATTGCGACCAGGCGAGCTATGCGGAATTATGGGA
CCTTCAGGTGCAGGCAAATCGACTTTGCTCAACATTCTCTCGGGATACAAGACGACAAAG
ATCGATGGATCGATAACGATGAACGGAAAGGAACGCAACATCAGCGTATTCCGCAAACTT
TCGGCTTACATCATGCAGGATAATCAATTGCATGCTAATCTCACTGTCGAGGAAGCAATG
AATGTTGCATCGAACTTAAAATTGAGCCAAAAAGTGTTGCGTGGCGAGAAAATGAATGTG
ATAAAAGAAATTTTAGAAACTCTTGGACTTGAAGAACATCGAAGAACTTTGACTAGAAAT
CTTTCAGGAGGTCAAAAGAAACGTTTATCGATTGCACTCGAATTGGTCAATAATCCACCG
ATTATGTTCTTTGATGAACCAACAAGTGGTCTTGACAGTTCAACATGCTTCCAGTGCATC
AATCTTCTTAAATTTTTAGCTCGTGGCGGTCGAACAATTATTTGCACAATTCATCAACCT
TCAGCTCGTCTTTTTGAAATGTTTGATCAACTTTACACACTTTCAGATGGTCAGTGTGTT
TATCAAGGCAGAACAAATCAATTAGTTCCATTCTTAGCCACACTTGGTCTCGAATGTCAA
GCATATCATAATCCAGCTAGTTATATCATTGAAGTTGCATGCGGTGAGCATGGTGATCAT
ACAAAGAAACTTGTAAATGCAATTGAAAATGGAAAGAAAGACATTCGAAGTGAATCAGAT
TATGAAAAAGTCAAACCAATCAATGGTCGAACTGACCTTGCAAAAGTTCACACAACTGAA
GCCAATTTGAAATCAACTTATGAGAAAAATGAAAAGTTTTCTGAAAATCAAACTGGAAAT
GGCAAAGGACTGCTTTCGGCAAAAGTTCTTAATGATATTGTAAAAGGCGATGAAAATGCA
GTTTCAATTACTGTTGATGACAAAGAACCTGACACAACAACTGCACTTTTAAGTGAAGAA
ACTGGCGATTTATCACCTGAAAGATATCCAACAAGTGAATTCCATCAATTTTGGGTTGTT
CTTAAGAGAACTTTACTTTTCAGTCGACGTGATTGGACTTTGATGTATCTTCGATTATTT
GCGCATGTTTTAGTTGGATTTTTAATTGGAGCATTATATTATGACATAGGAAATGATGGA
GCTAAAGTTTTAAGTAACTTAGGTTTCCTTTTCTTCAATATGCTTTTCCTTATGTACACA
TCTATGACTATTACTATTTTATCATTCCCATTGGAAATGCCTGTGCTGTTAAAAGAAAAT
TTCAATCGATGGTATTCATTGCGCAGTTACTATCTAGCTATTACAATTTCTGATATTCCA
TTCCAAGCAATTTTCTGTTTCATCTATGTATCGATCGTCTACTACTTTACATCACAACCT
ATGGAATGGTTCCGTTATGGACTCTTTTTGACAGCTTGCTTGCTCATTTCATTCGTAGCA
CAAAGTGTTGGTCTTGTAGTTGGTGCGGCCATGAATGTTCAAAATGGAGTTTTCCTTGCA
CCTGTCATGTCAGTTCCATTCCTGCTTTTCTCTGGATTCTTCGTCTCATTTGATGCCATT
CCAATTTACTTGCGTTGGATTACATATCTATCATATATTCGTTATGGTTTTGAAGCAACT
GCTTTGGCAACTTATGGTTATGGTCGTGAAAAGCTCAAATGCTCTCAAGTTTATTGTCAT
TTCAAATCACCACATACAACACTTGATGAACTTGATATGCTCAAATCTGATGTTGTGTTG
GATGTTGTTGCATTGATTTTAATTTTCTTCATATTGAGAATTGCCGCATATTTGTTCCTC
CGATGGAAATTGAAGACACAACGATAA
>g6040.t1 Gene=g6040 Length=688
MEDIVLINNRKNLVGTSSTKIQIVPAQPKTLTHLPSRPPVELAFKDLTYRVKEGRSNNVK
TILKEVSGRLRPGELCGIMGPSGAGKSTLLNILSGYKTTKIDGSITMNGKERNISVFRKL
SAYIMQDNQLHANLTVEEAMNVASNLKLSQKVLRGEKMNVIKEILETLGLEEHRRTLTRN
LSGGQKKRLSIALELVNNPPIMFFDEPTSGLDSSTCFQCINLLKFLARGGRTIICTIHQP
SARLFEMFDQLYTLSDGQCVYQGRTNQLVPFLATLGLECQAYHNPASYIIEVACGEHGDH
TKKLVNAIENGKKDIRSESDYEKVKPINGRTDLAKVHTTEANLKSTYEKNEKFSENQTGN
GKGLLSAKVLNDIVKGDENAVSITVDDKEPDTTTALLSEETGDLSPERYPTSEFHQFWVV
LKRTLLFSRRDWTLMYLRLFAHVLVGFLIGALYYDIGNDGAKVLSNLGFLFFNMLFLMYT
SMTITILSFPLEMPVLLKENFNRWYSLRSYYLAITISDIPFQAIFCFIYVSIVYYFTSQP
MEWFRYGLFLTACLLISFVAQSVGLVVGAAMNVQNGVFLAPVMSVPFLLFSGFFVSFDAI
PIYLRWITYLSYIRYGFEATALATYGYGREKLKCSQVYCHFKSPHTTLDELDMLKSDVVL
DVVALILIFFILRIAAYLFLRWKLKTQR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 20 | g6040.t1 | CDD | cd03213 | ABCG_EPDR | 39 | 263 | 5.24585E-86 |
| 6 | g6040.t1 | Gene3D | G3DSA:3.40.50.300 | - | 40 | 271 | 3.4E-57 |
| 3 | g6040.t1 | PANTHER | PTHR48041 | ABC TRANSPORTER G FAMILY MEMBER 28 | 8 | 684 | 0.0 |
| 4 | g6040.t1 | PANTHER | PTHR48041:SF6 | PROTEIN WHITE-LIKE PROTEIN | 8 | 684 | 0.0 |
| 2 | g6040.t1 | Pfam | PF00005 | ABC transporter | 63 | 209 | 1.1E-29 |
| 1 | g6040.t1 | Pfam | PF01061 | ABC-2 type transporter | 416 | 619 | 7.9E-41 |
| 8 | g6040.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 434 | - |
| 16 | g6040.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 435 | 454 | - |
| 13 | g6040.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 455 | 465 | - |
| 18 | g6040.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 466 | 489 | - |
| 9 | g6040.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 490 | 509 | - |
| 17 | g6040.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 510 | 536 | - |
| 11 | g6040.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 537 | 547 | - |
| 15 | g6040.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 548 | 570 | - |
| 10 | g6040.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 571 | 576 | - |
| 19 | g6040.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 577 | 604 | - |
| 12 | g6040.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 605 | 657 | - |
| 14 | g6040.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 658 | 680 | - |
| 7 | g6040.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 681 | 688 | - |
| 27 | g6040.t1 | ProSitePatterns | PS00211 | ABC transporters family signature. | 181 | 195 | - |
| 29 | g6040.t1 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 42 | 281 | 19.381 |
| 28 | g6040.t1 | SMART | SM00382 | AAA_5 | 72 | 265 | 4.7E-12 |
| 5 | g6040.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 34 | 282 | 2.38E-50 |
| 24 | g6040.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 432 | 454 | - |
| 26 | g6040.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 469 | 491 | - |
| 25 | g6040.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 511 | 533 | - |
| 23 | g6040.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 548 | 570 | - |
| 22 | g6040.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 575 | 597 | - |
| 21 | g6040.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 658 | 680 | - |
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:0016020 | membrane | CC |
| GO:0005524 | ATP binding | MF |
| GO:0016887 | ATP hydrolysis activity | MF |
KEGG
Orthology
- This transcript has been annotated with K05679 (ATP-binding cassette, subfamily G (WHITE), member 1)
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.
