General information for g6043.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 g6043 is located on chr_2: 13792336..13802633 (- 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 | g6043 | g6043.t1 | isoform | g6043.t1 | 13791419 | 13802633 |
| chr_2 | g6043 | g6043.t1 | exon | g6043.t1.exon1 | 13791419 | 13791520 |
| chr_2 | g6043 | g6043.t1 | cds | g6043.t1.CDS1 | 13791419 | 13791520 |
| chr_2 | g6043 | g6043.t1 | exon | g6043.t1.exon2 | 13791585 | 13792201 |
| chr_2 | g6043 | g6043.t1 | cds | g6043.t1.CDS2 | 13791585 | 13792201 |
| chr_2 | g6043 | g6043.t1 | exon | g6043.t1.exon3 | 13792255 | 13792279 |
| chr_2 | g6043 | g6043.t1 | cds | g6043.t1.CDS3 | 13792255 | 13792279 |
| chr_2 | g6043 | g6043.t1 | exon | g6043.t1.exon4 | 13792336 | 13792439 |
| chr_2 | g6043 | g6043.t1 | cds | g6043.t1.CDS4 | 13792336 | 13792439 |
| chr_2 | g6043 | g6043.t1 | exon | g6043.t1.exon5 | 13792824 | 13793014 |
| chr_2 | g6043 | g6043.t1 | cds | g6043.t1.CDS5 | 13792824 | 13793014 |
| chr_2 | g6043 | g6043.t1 | exon | g6043.t1.exon6 | 13793853 | 13793903 |
| chr_2 | g6043 | g6043.t1 | cds | g6043.t1.CDS6 | 13793853 | 13793903 |
| chr_2 | g6043 | g6043.t1 | exon | g6043.t1.exon7 | 13793968 | 13794034 |
| chr_2 | g6043 | g6043.t1 | cds | g6043.t1.CDS7 | 13793968 | 13794034 |
| chr_2 | g6043 | g6043.t1 | exon | g6043.t1.exon8 | 13798121 | 13798264 |
| chr_2 | g6043 | g6043.t1 | cds | g6043.t1.CDS8 | 13798121 | 13798264 |
| chr_2 | g6043 | g6043.t1 | exon | g6043.t1.exon9 | 13800226 | 13800285 |
| chr_2 | g6043 | g6043.t1 | cds | g6043.t1.CDS9 | 13800226 | 13800285 |
| chr_2 | g6043 | g6043.t1 | exon | g6043.t1.exon10 | 13802486 | 13802633 |
| chr_2 | g6043 | g6043.t1 | cds | g6043.t1.CDS10 | 13802486 | 13802633 |
| chr_2 | g6043 | g6043.t1 | TSS | g6043.t1 | NA | NA |
| chr_2 | g6043 | g6043.t1 | TTS | g6043.t1 | NA | NA |
Sequences
>g6043.t1 Gene=g6043 Length=1509
ATGTCAACTGGTAGTTCATCATCATTTGATGAGATTTTAGTGGAGAGTGAGTTAAGAGGA
CAAGATAAACTTAAGTACTTGCCACACTGGCCAGCTGTTAACATTACTTTTGAAGATGTT
GTCTATACAGTCGATAGTGGAGTTGATAACTCAAAATCAATTCTTAGAGGCCGTCGAATG
GATCATTTAAATCTGGAGCAATTAGTTGGAAAAACCTGGTTGGAACATCATCGACAAAAA
ATACAAATTGTTCCAGCACAACCAAAGACATTGACACATTTACCATCAAGACCACCGGTT
GAATTAGCCTTCAAGGATTTAACTTATCGTGTTAAGGAAGGACGTTCTAATAATGTTAAA
ACAATTCTCAAAGAAGTTAGCGGTCGATTGCGACCAGGCGAGCTATGCGGAATTATGGGA
CCTTCAGGTGCAGGCAAATCGACTTTGCTCAATATTCTCTCGGGATACAAGACGACAAAG
ATCGATGGATCGATAACGATGAATGGAAAGGAACGCAACATCAGCGTATTCCGCAAACTT
TCGGCTTACATCATGCAGGATAATCAATTGCATGCTAATCTCACTGTCGAGGAAGCAATG
AATGTTGCATCGAACTTAAAATTGAGCCAAAAAGTGTTGACGTGGCGAGAAAATGAATGT
GAAACTCTTGGACTTGAAGAACATCGAAGAACTTTGACAAGAAATCTTTCAGGAGGTCAA
AAGAAACGTTTATCAATTGCACTCGAATTGGTCAATAATCCACCGATTATGTTCTTTGAT
GAACCAACAACTCGTGGCGGTCGAACAATTATTTGCACAATTCATCAACCTTCAGCTCGT
CTTTTTGAAATGTTTGATCAACTTTACACACTTTCAGATGGTCAGTGTGTTTATCAAGGC
AGAACAAAACAATTAGTTCCATTTTTAGCCACACTTGGTCTCGAATGTCAAGCATATCAT
AATCCAGCTAGTTATATCATTGAAGTTGCATGCGGTGAGCATGGTGATCATACAAAGAAA
CTTGTAAATGCAATTGAAAATGGAAAGAAAGACATTCGAAGTGAATCAGATTATGAAAAA
GTCAAACCAATCAATGGTCGAACTGATCTTGCAAAAGTTCACACAACTGAAGCCAATTTG
AAATCAACTTATGAGAAAAATGAAAAGTTTTCTGAAAATCAAACTGGAAATGGCAAAGGA
CTGCTTTCGGCAAAAGTTCTTAATGATATTGTAAAAGGCGATGAAAATGCAGTTTCAATT
ACTGTTGATGACAAAGAACCTGACACAACAACTGCACTTTTAAGTGAAGAAACTGGCGAT
TTATCACCTGAAAGATATCCAACAAGTGAATTTCATCAATTTTGGGTTGTTCTTAAGAGA
ACTTTACTTTTCAGTCGACGTGATTGGACATTGATGTATCTTCGATTATTTGCGCATGTT
TTAGTTGGATTTTTAATTGGAGCATTATATTATGACATAGGAAATGATGGAGCTAAAGTT
TTAAAGTAA
>g6043.t1 Gene=g6043 Length=502
MSTGSSSSFDEILVESELRGQDKLKYLPHWPAVNITFEDVVYTVDSGVDNSKSILRGRRM
DHLNLEQLVGKTWLEHHRQKIQIVPAQPKTLTHLPSRPPVELAFKDLTYRVKEGRSNNVK
TILKEVSGRLRPGELCGIMGPSGAGKSTLLNILSGYKTTKIDGSITMNGKERNISVFRKL
SAYIMQDNQLHANLTVEEAMNVASNLKLSQKVLTWRENECETLGLEEHRRTLTRNLSGGQ
KKRLSIALELVNNPPIMFFDEPTTRGGRTIICTIHQPSARLFEMFDQLYTLSDGQCVYQG
RTKQLVPFLATLGLECQAYHNPASYIIEVACGEHGDHTKKLVNAIENGKKDIRSESDYEK
VKPINGRTDLAKVHTTEANLKSTYEKNEKFSENQTGNGKGLLSAKVLNDIVKGDENAVSI
TVDDKEPDTTTALLSEETGDLSPERYPTSEFHQFWVVLKRTLLFSRRDWTLMYLRLFAHV
LVGFLIGALYYDIGNDGAKVLK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g6043.t1 | CDD | cd03213 | ABCG_EPDR | 99 | 300 | 6.67289E-77 |
| 6 | g6043.t1 | Gene3D | G3DSA:3.40.50.300 | - | 99 | 310 | 1.6E-43 |
| 3 | g6043.t1 | PANTHER | PTHR48041 | ABC TRANSPORTER G FAMILY MEMBER 28 | 78 | 501 | 8.8E-204 |
| 4 | g6043.t1 | PANTHER | PTHR48041:SF6 | PROTEIN WHITE-LIKE PROTEIN | 78 | 501 | 8.8E-204 |
| 2 | g6043.t1 | Pfam | PF00005 | ABC transporter | 123 | 263 | 1.0E-27 |
| 1 | g6043.t1 | Pfam | PF19055 | ABC-2 type transporter | 275 | 373 | 7.7E-8 |
| 7 | g6043.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 471 | - |
| 9 | g6043.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 472 | 491 | - |
| 8 | g6043.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 492 | 502 | - |
| 12 | g6043.t1 | ProSitePatterns | PS00211 | ABC transporters family signature. | 236 | 250 | - |
| 14 | g6043.t1 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 102 | 318 | 14.859 |
| 13 | g6043.t1 | SMART | SM00382 | AAA_5 | 132 | 302 | 1.3E-9 |
| 5 | g6043.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 93 | 319 | 1.54E-40 |
| 11 | g6043.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 469 | 491 | - |
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:0042626 | ATPase-coupled transmembrane transporter activity | 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.
