General information for g5011.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as ATP-binding cassette sub-family G member 4.
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.t3 | TTS | g5011.t3 | 6425949 | 6425949 |
| chr_2 | g5011 | g5011.t3 | isoform | g5011.t3 | 6426849 | 6434676 |
| chr_2 | g5011 | g5011.t3 | exon | g5011.t3.exon1 | 6426849 | 6427507 |
| chr_2 | g5011 | g5011.t3 | cds | g5011.t3.CDS1 | 6426849 | 6427507 |
| chr_2 | g5011 | g5011.t3 | exon | g5011.t3.exon2 | 6427574 | 6427667 |
| chr_2 | g5011 | g5011.t3 | cds | g5011.t3.CDS2 | 6427574 | 6427667 |
| chr_2 | g5011 | g5011.t3 | exon | g5011.t3.exon3 | 6427850 | 6427922 |
| chr_2 | g5011 | g5011.t3 | cds | g5011.t3.CDS3 | 6427850 | 6427922 |
| chr_2 | g5011 | g5011.t3 | exon | g5011.t3.exon4 | 6427990 | 6428322 |
| chr_2 | g5011 | g5011.t3 | cds | g5011.t3.CDS4 | 6427990 | 6428294 |
| chr_2 | g5011 | g5011.t3 | exon | g5011.t3.exon5 | 6428813 | 6428930 |
| chr_2 | g5011 | g5011.t3 | exon | g5011.t3.exon6 | 6434576 | 6434676 |
| chr_2 | g5011 | g5011.t3 | TSS | g5011.t3 | 6434682 | 6434682 |
Sequences
>g5011.t3 Gene=g5011 Length=1378
TTTTCTATCGTGAGACGCGACAGACGTAAAAACCCAAAATAAGGAGAAAAGCGAAGATTT
AATAAATTTATAAACATTTAAATCAAACGATGTTTTAAAAAAAAAGAAAGATGTACTCAA
AGGTGTTTCTGGTAGATTTAAATCCGGCGAATTAACGGCAATTTTGGGACCCTCAGGCGC
CGGCAAATCAAGTTTATTGAACATTCTTACTGGGTTTACCACACATGGTGTAAAAGGTGT
ACTTGACATGGGAGAAAAATCGTCATCAAATGGACAAAAAATGTGTAGTTACATTTTACA
AGAAGACAATCTTTATCCATTTTTCACGGTCAATGAGACAATGGTGATTGCAGCTAATTT
AAAAATTTCAAGTCGTTGCATGAGTCAAAAGGAAAAGCAGAGTTTGATTGACAATATTTT
AGATACACTTCATCTCACAGATGCAAAAGAAACTCGTTGCCGAAATCTTTCTGGCGGACA
AAAGAAAAGACTTTCAATTGCATTAGAACTCATAGATGATCCACCAATATTATTTTTAGA
TGAACCTACGACTGGTCTAGATAGTTCTTGTTCAACTTATACAATAAGATTACTTCATAA
TCTTGCAAGAGAAGGAAGAACAATTGTTTGTACAATACATCAACCATCAGCAACAATTTA
TGAGTTGTTCGATTTGGTTTATGTTCTAGCTGAAGGACATTGCATTTATCAGGGTTCAGT
TCAAAATACTGTGCCATATCTAGCACAACAAGGGTTTCAATGTCCACAATTTCATAATCC
AGCTGATTATCTTCTTGAAGTCGCAAATGGAGAATACGGAAATTTCACATATCAACTTGC
GAAAGCAGCCATGAGTGAACAGTGGAGAACGTCAACAAACACTGTCTACATTCGCGATGA
GTATGAATTAAGTTCTGACAAGAATGATGATGAAATATCTAATGATACGGACGAGAAACG
AATAAGTGTTTATACAAAAACGAGTGAAAGTGAGAACTTATCTGGCAAACTGAGTTTCAA
ATCAAGTATTATTAAAACGACGCCATCAGAATTAACACGTTTATGGATTCTTATTTCACG
ATGCAATGTTTTATTGTTTAGAGATTGGACAGTCACGCATCTTAAGCTTCTTTTACATTT
CATTAGCGGAATAATAATTGGACTTTACTTTGGTGATGCAGGTGTTAATGCAAATAAGAG
TATATCGAATGTTGGATTTCTTATAATAAATGCAGTTTACTTATGGTACACAACAATGAT
GCCTGGCGTATTACGTTTTCCTGCAGAAATATCAATATTAAAGAAAGAAGTTTTTAATAA
TTGGTATAAATTGCGTACATATTATATTGCTACACTTATTACATCAACGCCTATTCAT
>g5011.t3 Gene=g5011 Length=377
MGEKSSSNGQKMCSYILQEDNLYPFFTVNETMVIAANLKISSRCMSQKEKQSLIDNILDT
LHLTDAKETRCRNLSGGQKKRLSIALELIDDPPILFLDEPTTGLDSSCSTYTIRLLHNLA
REGRTIVCTIHQPSATIYELFDLVYVLAEGHCIYQGSVQNTVPYLAQQGFQCPQFHNPAD
YLLEVANGEYGNFTYQLAKAAMSEQWRTSTNTVYIRDEYELSSDKNDDEISNDTDEKRIS
VYTKTSESENLSGKLSFKSSIIKTTPSELTRLWILISRCNVLLFRDWTVTHLKLLLHFIS
GIIIGLYFGDAGVNANKSISNVGFLIINAVYLWYTTMMPGVLRFPAEISILKKEVFNNWY
KLRTYYIATLITSTPIH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g5011.t3 | Gene3D | G3DSA:3.40.50.300 | - | 2 | 171 | 1.4E-35 |
| 4 | g5011.t3 | PANTHER | PTHR48041 | ABC TRANSPORTER G FAMILY MEMBER 28 | 4 | 377 | 2.2E-168 |
| 5 | g5011.t3 | PANTHER | PTHR48041:SF32 | PROTEIN WHITE-LIKE PROTEIN | 4 | 377 | 2.2E-168 |
| 3 | g5011.t3 | Pfam | PF00005 | ABC transporter | 10 | 101 | 3.0E-13 |
| 1 | g5011.t3 | Pfam | PF19055 | ABC-2 type transporter | 131 | 248 | 1.1E-10 |
| 2 | g5011.t3 | Pfam | PF01061 | ABC-2 type transporter | 271 | 376 | 3.1E-12 |
| 10 | g5011.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 291 | - |
| 13 | g5011.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 292 | 309 | - |
| 12 | g5011.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 310 | 314 | - |
| 14 | g5011.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 315 | 334 | - |
| 11 | g5011.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 335 | 377 | - |
| 8 | g5011.t3 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 12 | 169 | 9.29E-32 |
| 6 | g5011.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 287 | 309 | - |
| 7 | g5011.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 322 | 344 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5011/g5011.t3; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5011.t3.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 |
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. There were no conditions that were differentially expressed