General information for g5011.t4
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.t4 | TTS | g5011.t4 | 6425949 | 6425949 |
| chr_2 | g5011 | g5011.t4 | isoform | g5011.t4 | 6426849 | 6438838 |
| chr_2 | g5011 | g5011.t4 | exon | g5011.t4.exon1 | 6426849 | 6427507 |
| chr_2 | g5011 | g5011.t4 | cds | g5011.t4.CDS1 | 6426849 | 6427507 |
| chr_2 | g5011 | g5011.t4 | exon | g5011.t4.exon2 | 6427574 | 6427667 |
| chr_2 | g5011 | g5011.t4 | cds | g5011.t4.CDS2 | 6427574 | 6427667 |
| chr_2 | g5011 | g5011.t4 | exon | g5011.t4.exon3 | 6427850 | 6427922 |
| chr_2 | g5011 | g5011.t4 | cds | g5011.t4.CDS3 | 6427850 | 6427922 |
| chr_2 | g5011 | g5011.t4 | exon | g5011.t4.exon4 | 6427990 | 6428322 |
| chr_2 | g5011 | g5011.t4 | cds | g5011.t4.CDS4 | 6427990 | 6428322 |
| chr_2 | g5011 | g5011.t4 | exon | g5011.t4.exon5 | 6428813 | 6428930 |
| chr_2 | g5011 | g5011.t4 | cds | g5011.t4.CDS5 | 6428813 | 6428930 |
| chr_2 | g5011 | g5011.t4 | exon | g5011.t4.exon6 | 6432846 | 6433187 |
| chr_2 | g5011 | g5011.t4 | cds | g5011.t4.CDS6 | 6432846 | 6432936 |
| chr_2 | g5011 | g5011.t4 | exon | g5011.t4.exon7 | 6438630 | 6438838 |
| chr_2 | g5011 | g5011.t4 | TSS | g5011.t4 | 6438848 | 6438848 |
Sequences
>g5011.t4 Gene=g5011 Length=1828
TGACTGCGTTCATTTTCAGACGTGTTTCGCTTAGTACGATAAAAAATTTTTAAAAAAGCA
AAAAAGTCTAATTAATGCCATAATTTAAATCGAAGAACGGAAGGAGAGCAAAAAAAAGTC
GAACAGTCGATGACAATAAAAGACTACAAAAAAATTATAATAAAAAGCTATAATTCGAAA
TAATAGTTGTTGAATATTCATCGATAAAGCATTTCCTGTTGACGATTACCAAATTTGAAT
TGACGTCATTATGAGCTCTTTAGTGAAATGATAAAATTGATAAAAATAAAATTACAACAG
TAATTATAACCTTCATTAACTCTAGCTTAAAAGAGAGTAATAAACTGAAAAAAACTATGA
ATTAAAAGTTAGTGGAACGTGCAATTAGTGAGAAAATTAACAAAACAGAACAATTAAAAT
ATTTTGAATAAAGAATAGACATTATTAAGAGTGATTAAACATGGATATGTCGAGTAGTGA
GGATTCATCAAGTCGGATTGACATCAATTTCGAGAACATCGTTTACACAGTTTCTGTGCC
AAAGCAAAAAGAAAAGAAAGATGTACTCAAAGGTGTTTCTGGTAGATTTAAATCCGGCGA
ATTAACGGCAATTTTGGGACCCTCAGGCGCCGGCAAATCAAGTTTATTGAACATTCTTAC
TGGGTTTACCACACATGGTGTAAAAGGTGTACTTGACATGGGAGAAAAATCGTCATCAAA
TGGACAAAAAATGTGTAGTTACATTTTACAAGAAGACAATCTTTATCCATTTTTCACGGT
CAATGAGACAATGGTGATTGCAGCTAATTTAAAAATTTCAAGTCGTTGCATGAGTCAAAA
GGAAAAGCAGAGTTTGATTGACAATATTTTAGATACACTTCATCTCACAGATGCAAAAGA
AACTCGTTGCCGAAATCTTTCTGGCGGACAAAAGAAAAGACTTTCAATTGCATTAGAACT
CATAGATGATCCACCAATATTATTTTTAGATGAACCTACGACTGGTCTAGATAGTTCTTG
TTCAACTTATACAATAAGATTACTTCATAATCTTGCAAGAGAAGGAAGAACAATTGTTTG
TACAATACATCAACCATCAGCAACAATTTATGAGTTGTTCGATTTGGTTTATGTTCTAGC
TGAAGGACATTGCATTTATCAGGGTTCAGTTCAAAATACTGTGCCATATCTAGCACAACA
AGGGTTTCAATGTCCACAATTTCATAATCCAGCTGATTATCTTCTTGAAGTCGCAAATGG
AGAATACGGAAATTTCACATATCAACTTGCGAAAGCAGCCATGAGTGAACAGTGGAGAAC
GTCAACAAACACTGTCTACATTCGCGATGAGTATGAATTAAGTTCTGACAAGAATGATGA
TGAAATATCTAATGATACGGACGAGAAACGAATAAGTGTTTATACAAAAACGAGTGAAAG
TGAGAACTTATCTGGCAAACTGAGTTTCAAATCAAGTATTATTAAAACGACGCCATCAGA
ATTAACACGTTTATGGATTCTTATTTCACGATGCAATGTTTTATTGTTTAGAGATTGGAC
AGTCACGCATCTTAAGCTTCTTTTACATTTCATTAGCGGAATAATAATTGGACTTTACTT
TGGTGATGCAGGTGTTAATGCAAATAAGAGTATATCGAATGTTGGATTTCTTATAATAAA
TGCAGTTTACTTATGGTACACAACAATGATGCCTGGCGTATTACGTTTTCCTGCAGAAAT
ATCAATATTAAAGAAAGAAGTTTTTAATAATTGGTATAAATTGCGTACATATTATATTGC
TACACTTATTACATCAACGCCTATTCAT
>g5011.t4 Gene=g5011 Length=456
MDMSSSEDSSSRIDINFENIVYTVSVPKQKEKKDVLKGVSGRFKSGELTAILGPSGAGKS
SLLNILTGFTTHGVKGVLDMGEKSSSNGQKMCSYILQEDNLYPFFTVNETMVIAANLKIS
SRCMSQKEKQSLIDNILDTLHLTDAKETRCRNLSGGQKKRLSIALELIDDPPILFLDEPT
TGLDSSCSTYTIRLLHNLAREGRTIVCTIHQPSATIYELFDLVYVLAEGHCIYQGSVQNT
VPYLAQQGFQCPQFHNPADYLLEVANGEYGNFTYQLAKAAMSEQWRTSTNTVYIRDEYEL
SSDKNDDEISNDTDEKRISVYTKTSESENLSGKLSFKSSIIKTTPSELTRLWILISRCNV
LLFRDWTVTHLKLLLHFISGIIIGLYFGDAGVNANKSISNVGFLIINAVYLWYTTMMPGV
LRFPAEISILKKEVFNNWYKLRTYYIATLITSTPIH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g5011.t4 | CDD | cd03213 | ABCG_EPDR | 12 | 235 | 1.72706E-73 |
| 7 | g5011.t4 | Gene3D | G3DSA:3.40.50.300 | - | 19 | 250 | 3.4E-53 |
| 4 | g5011.t4 | PANTHER | PTHR48041 | ABC TRANSPORTER G FAMILY MEMBER 28 | 30 | 456 | 5.8E-200 |
| 5 | g5011.t4 | PANTHER | PTHR48041:SF32 | PROTEIN WHITE-LIKE PROTEIN | 30 | 456 | 5.8E-200 |
| 3 | g5011.t4 | Pfam | PF00005 | ABC transporter | 36 | 180 | 2.3E-26 |
| 1 | g5011.t4 | Pfam | PF19055 | ABC-2 type transporter | 210 | 327 | 1.8E-10 |
| 2 | g5011.t4 | Pfam | PF01061 | ABC-2 type transporter | 350 | 455 | 4.4E-12 |
| 8 | g5011.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 370 | - |
| 12 | g5011.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 371 | 388 | - |
| 10 | g5011.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 389 | 393 | - |
| 11 | g5011.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 394 | 413 | - |
| 9 | g5011.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 414 | 456 | - |
| 16 | g5011.t4 | ProSitePatterns | PS00211 | ABC transporters family signature. | 153 | 167 | - |
| 18 | g5011.t4 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 15 | 253 | 19.194 |
| 17 | g5011.t4 | SMART | SM00382 | AAA_5 | 45 | 229 | 2.6E-11 |
| 6 | g5011.t4 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 19 | 248 | 3.42E-47 |
| 15 | g5011.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 366 | 388 | - |
| 14 | g5011.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 401 | 423 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5011/g5011.t4; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5011.t4.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0016020 | membrane | CC |
| GO:0005524 | ATP binding | MF |
| GO:0042626 | ATPase-coupled transmembrane transporter activity | MF |
| GO:0016887 | ATP hydrolysis activity | MF |
KEGG
Orthology
- This transcript has been annotated with K02036 (phosphate transport system ATP-binding protein)
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.
