General information for g5011.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 g5011 is located on chr_2: 6432849..6438838 (- 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 | g5011 | g5011.t1 | TTS | g5011.t1 | 6425949 | 6425949 |
| chr_2 | g5011 | g5011.t1 | isoform | g5011.t1 | 6426217 | 6432936 |
| chr_2 | g5011 | g5011.t1 | exon | g5011.t1.exon1 | 6426217 | 6426564 |
| chr_2 | g5011 | g5011.t1 | cds | g5011.t1.CDS1 | 6426217 | 6426564 |
| chr_2 | g5011 | g5011.t1 | exon | g5011.t1.exon2 | 6426629 | 6426784 |
| chr_2 | g5011 | g5011.t1 | cds | g5011.t1.CDS2 | 6426629 | 6426784 |
| chr_2 | g5011 | g5011.t1 | exon | g5011.t1.exon3 | 6426849 | 6427507 |
| chr_2 | g5011 | g5011.t1 | cds | g5011.t1.CDS3 | 6426849 | 6427507 |
| chr_2 | g5011 | g5011.t1 | exon | g5011.t1.exon4 | 6427574 | 6427667 |
| chr_2 | g5011 | g5011.t1 | cds | g5011.t1.CDS4 | 6427574 | 6427667 |
| chr_2 | g5011 | g5011.t1 | exon | g5011.t1.exon5 | 6427850 | 6427922 |
| chr_2 | g5011 | g5011.t1 | cds | g5011.t1.CDS5 | 6427850 | 6427922 |
| chr_2 | g5011 | g5011.t1 | exon | g5011.t1.exon6 | 6427990 | 6428322 |
| chr_2 | g5011 | g5011.t1 | cds | g5011.t1.CDS6 | 6427990 | 6428322 |
| chr_2 | g5011 | g5011.t1 | exon | g5011.t1.exon7 | 6428813 | 6428930 |
| chr_2 | g5011 | g5011.t1 | cds | g5011.t1.CDS7 | 6428813 | 6428930 |
| chr_2 | g5011 | g5011.t1 | exon | g5011.t1.exon8 | 6432846 | 6432936 |
| chr_2 | g5011 | g5011.t1 | cds | g5011.t1.CDS8 | 6432846 | 6432936 |
| chr_2 | g5011 | g5011.t1 | TSS | g5011.t1 | NA | NA |
Sequences
>g5011.t1 Gene=g5011 Length=1872
ATGGATATGTCGAGTAGTGAGGATTCATCAAGTCGGATTGACATCAATTTCGAGAACATC
GTTTACACAGTTTCTGTGCCAAAGCAAAAAGAAAAGAAAGATGTACTCAAAGGTGTTTCT
GGTAGATTTAAATCCGGCGAATTAACGGCAATTTTGGGACCCTCAGGCGCCGGCAAATCA
AGTTTATTGAACATTCTTACTGGGTTTACCACACATGGTGTAAAAGGTGTACTTGACATG
GGAGAAAAATCGTCATCAAATGGACAAAAAATGTGTAGTTACATTTTACAAGAAGACAAT
CTTTATCCATTTTTCACGGTCAATGAGACAATGGTGATTGCAGCTAATTTAAAAATTTCA
AGTCGTTGCATGAGTCAAAAGGAAAAGCAGAGTTTGATTGACAATATTTTAGATACACTT
CATCTCACAGATGCAAAAGAAACTCGTTGCCGAAATCTTTCTGGCGGACAAAAGAAAAGA
CTTTCAATTGCATTAGAACTCATAGATGATCCACCAATATTATTTTTAGATGAACCTACG
ACTGGTCTAGATAGTTCTTGTTCAACTTATACAATAAGATTACTTCATAATCTTGCAAGA
GAAGGAAGAACAATTGTTTGTACAATACATCAACCATCAGCAACAATTTATGAGTTGTTC
GATTTGGTTTATGTTCTAGCTGAAGGACATTGCATTTATCAGGGTTCAGTTCAAAATACT
GTGCCATATCTAGCACAACAAGGGTTTCAATGTCCACAATTTCATAATCCAGCTGATTAT
CTTCTTGAAGTCGCAAATGGAGAATACGGAAATTTCACATATCAACTTGCGAAAGCAGCC
ATGAGTGAACAGTGGAGAACGTCAACAAACACTGTCTACATTCGCGATGAGTATGAATTA
AGTTCTGACAAGAATGATGATGAAATATCTAATGATACGGACGAGAAACGAATAAGTGTT
TATACAAAAACGAGTGAAAGTGAGAACTTATCTGGCAAACTGAGTTTCAAATCAAGTATT
ATTAAAACGACGCCATCAGAATTAACACGTTTATGGATTCTTATTTCACGATGCAATGTT
TTATTGTTTAGAGATTGGACAGTCACGCATCTTAAGCTTCTTTTACATTTCATTAGCGGA
ATAATAATTGGACTTTACTTTGGTGATGCAGGTGTTAATGCAAATAAGAGTATATCGAAT
GTTGGATTTCTTATAATAAATGCAGTTTACTTATGGTACACAACAATGATGCCTGGCGTA
TTACGTTTTCCTGCAGAAATATCAATATTAAAGAAAGAAGTTTTTAATAATTGGTATAAA
TTGCGTACATATTATATTGCTACACTTATTACATCAACGCCTATTCATACACTTTTTGCA
CTCGTGTATGCGACTGTCGTTTACTTCATCACGGAACAACCTCCTGAGCCTAGTAGATAT
TTAAAAGTAATGCTAGTATATGTTCTAGTTGTTATTGCTGCTGATGGATTTGGTATTTTA
CTAGGTACTTTGGTTAATCCAGTGAATGGAACATTTTTTGGCGCTATCAGTTCATGCTTC
ATGATAGTCTTTTGTGGTTTTCTTGTCCTCTTCAAGCATATGCCAGTTATTATGCAGTAT
GTTAGTGATTTTAGTCTGCACAAGTACTGTTTAGTAGCACTTACTGTTGCAACTTATGAA
CATGGACGACCTGATTTGATTTGCCCCGAAGATTCATTATATTGCCATTATAGTAAATCA
TCCATCATCATGAAAGAGCTTGGAGTTGAAACTGAATCGTATAGCATGAATATTATCAAA
ATGTTTGCTCAACTTTTAGTCTTTAAAAGTTTGGCATTTATTACGCTTCGGAGACGATTA
ATTAAGAGTTAA
>g5011.t1 Gene=g5011 Length=623
MDMSSSEDSSSRIDINFENIVYTVSVPKQKEKKDVLKGVSGRFKSGELTAILGPSGAGKS
SLLNILTGFTTHGVKGVLDMGEKSSSNGQKMCSYILQEDNLYPFFTVNETMVIAANLKIS
SRCMSQKEKQSLIDNILDTLHLTDAKETRCRNLSGGQKKRLSIALELIDDPPILFLDEPT
TGLDSSCSTYTIRLLHNLAREGRTIVCTIHQPSATIYELFDLVYVLAEGHCIYQGSVQNT
VPYLAQQGFQCPQFHNPADYLLEVANGEYGNFTYQLAKAAMSEQWRTSTNTVYIRDEYEL
SSDKNDDEISNDTDEKRISVYTKTSESENLSGKLSFKSSIIKTTPSELTRLWILISRCNV
LLFRDWTVTHLKLLLHFISGIIIGLYFGDAGVNANKSISNVGFLIINAVYLWYTTMMPGV
LRFPAEISILKKEVFNNWYKLRTYYIATLITSTPIHTLFALVYATVVYFITEQPPEPSRY
LKVMLVYVLVVIAADGFGILLGTLVNPVNGTFFGAISSCFMIVFCGFLVLFKHMPVIMQY
VSDFSLHKYCLVALTVATYEHGRPDLICPEDSLYCHYSKSSIIMKELGVETESYSMNIIK
MFAQLLVFKSLAFITLRRRLIKS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 21 | g5011.t1 | CDD | cd03213 | ABCG_EPDR | 12 | 235 | 3.22151E-71 |
| 7 | g5011.t1 | Coils | Coil | Coil | 622 | 623 | - |
| 6 | g5011.t1 | Gene3D | G3DSA:3.40.50.300 | - | 19 | 250 | 7.0E-53 |
| 3 | g5011.t1 | PANTHER | PTHR48041 | ABC TRANSPORTER G FAMILY MEMBER 28 | 30 | 619 | 3.3E-262 |
| 4 | g5011.t1 | PANTHER | PTHR48041:SF32 | PROTEIN WHITE-LIKE PROTEIN | 30 | 619 | 3.3E-262 |
| 2 | g5011.t1 | Pfam | PF00005 | ABC transporter | 36 | 180 | 4.1E-26 |
| 1 | g5011.t1 | Pfam | PF01061 | ABC-2 type transporter | 350 | 556 | 8.1E-28 |
| 8 | g5011.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 370 | - |
| 16 | g5011.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 371 | 388 | - |
| 13 | g5011.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 389 | 399 | - |
| 15 | g5011.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 400 | 423 | - |
| 11 | g5011.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 424 | 443 | - |
| 20 | g5011.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 444 | 471 | - |
| 12 | g5011.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 472 | 482 | - |
| 19 | g5011.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 483 | 505 | - |
| 9 | g5011.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 506 | 511 | - |
| 18 | g5011.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 512 | 531 | - |
| 14 | g5011.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 532 | 593 | - |
| 17 | g5011.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 594 | 616 | - |
| 10 | g5011.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 617 | 623 | - |
| 28 | g5011.t1 | ProSitePatterns | PS00211 | ABC transporters family signature. | 153 | 167 | - |
| 29 | g5011.t1 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 15 | 253 | 19.194 |
| 27 | g5011.t1 | SMART | SM00382 | AAA_5 | 45 | 229 | 2.6E-11 |
| 5 | g5011.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 19 | 247 | 7.1E-47 |
| 26 | g5011.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 366 | 388 | - |
| 24 | g5011.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 401 | 423 | - |
| 23 | g5011.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 448 | 470 | - |
| 25 | g5011.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 483 | 505 | - |
| 22 | g5011.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 509 | 531 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5011/g5011.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5011.t1.fa.iupred3.txt does not exist
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.
