General information for g1356.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative ABC transporter G family member 23.
Parent gene
- The parent gene g1356 is located on chr_3: 10056817..10059830 (- 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_3 | g1356 | g1356.t1 | isoform | g1356.t1 | 10056817 | 10059830 |
| chr_3 | g1356 | g1356.t1 | exon | g1356.t1.exon1 | 10056817 | 10057024 |
| chr_3 | g1356 | g1356.t1 | cds | g1356.t1.CDS1 | 10056817 | 10057024 |
| chr_3 | g1356 | g1356.t1 | exon | g1356.t1.exon2 | 10057746 | 10058106 |
| chr_3 | g1356 | g1356.t1 | cds | g1356.t1.CDS2 | 10057746 | 10058106 |
| chr_3 | g1356 | g1356.t1 | exon | g1356.t1.exon3 | 10058222 | 10058490 |
| chr_3 | g1356 | g1356.t1 | cds | g1356.t1.CDS3 | 10058222 | 10058490 |
| chr_3 | g1356 | g1356.t1 | exon | g1356.t1.exon4 | 10058892 | 10059668 |
| chr_3 | g1356 | g1356.t1 | cds | g1356.t1.CDS4 | 10058892 | 10059668 |
| chr_3 | g1356 | g1356.t1 | exon | g1356.t1.exon5 | 10059718 | 10059830 |
| chr_3 | g1356 | g1356.t1 | cds | g1356.t1.CDS5 | 10059718 | 10059830 |
| chr_3 | g1356 | g1356.t1 | TSS | g1356.t1 | NA | NA |
| chr_3 | g1356 | g1356.t1 | TTS | g1356.t1 | NA | NA |
Sequences
>g1356.t1 Gene=g1356 Length=1728
ATGTTTAATAATTGCATAAAAATTCAAAATGTTTTTAAATCATATCAACAAAAATTAAAT
AAAAAAGAAAATGTTTTGAATGGAATTAGTTTAAATGTTGAACGAGGACAAATTTACGCT
TTGGCTGGTTCATCAGGATGTGGTAAAACAACATTACTCAATTGTCTAATGGGAATGTAT
GAAATTGACAGTGGTGAAATTGAAATTTTCAATCAACAAATTGAATTTAAACAAATTTCA
AAACTTTCAAATATAATAGGCTTTATGCCACAACAAACTTCACTTGTTGATAATCTTACC
ATTATGGAAACACTTCAATATTTTGCAAATTTGCAATTAATGGATCAAAAAAATTTTATT
GAACGTTTTAAAATAATTTCAGACTTGTTAGAATTGCCAGCAAAAAATTCATTTATAAAA
AAATTGTCAGGTGGTGAACAACGAAGAGTTTCTTTAGCTGTCACAATAATTCATAATCCA
CAATTACTTATTTTGGATGAACCAACTGTCGGATTAGATTTTAAATTAAGAAATAAAATT
TGGAATTATTTTGAAAAACAAACAACAGAAAATAAACTCACAATTTTGGTTACAACGCAT
TGCATGAATGAAGTAAAAAAATCACATCGATGTGGTTTTATGCGTGATGGAATTTTAATT
GAGGATGATAAACCACTGAAAATTATGGAAAAATATGAAACTCAGTCATTTGATGAAGCT
TTTTATCAAATGTGTTTGAATGAAAATGAAAATAGAGAGATTAAAAAATTGGAAAACTGT
GACAAAGTCAAGAATTATAAAATAAAAGAAAGTTCAACGAGAAAAGTTAGAAAACAAATC
ATCAAAGCACTTTTAGTCAAAGAATTTCATCGTTTTAAAAGAGCTTACACAGAAATTTAT
ATGGTTTTCATCTATTCAATTTTTTCTATTCTTATCTATAATTCAACATTTGGTAAAATT
CCAAAGGACTTAAAACTTGGAATTGTCAACTATGAGATAGAAAACTACAATTGTGATACA
TTACCACAAAATAATTCAAATCAATGTGAAAACAAAATGTTTTTATGTGGATTTTTCAAT
CATACTGAAGATTTCAAGGCAATATTTTACAAATCATACGAAGATGCAAATCAAGATCTC
CATGATTTTAAAATTATAAACTCAATAACAATAACAAGTGGTGTTTCAATACTTGCAATT
CTACAGTCTCGTATGGATGGTGTTTGGAATCGAAGTCTTTTAAATGGAGTTAGCATAACA
GAAATTCTCATTGCTAATTTTATTCAATATACATTTTATTCTTTAATTATTTCAATTGAG
TTAATTTTGTTACTGATTTACATTGTCAAAGTTGAAATTGTTGGAAGAATTTGGCTTGCA
TTTCTGTTGATTTTTGGATATTCAATTGATGGATTTCTTTTTGGTTTAAATTGTTCGATA
ATTTTCAAAGATTTTATCAGTGGACATTATTCAAATATTGCAGTCATTTCACATATTACA
CTACTATCTGGAATTATTTGGCCAACTGAAGGATTTTCAAAATGGCTAAAACCTTTGGAG
TATATTTTGCCGCTTGCATTTCCTCTCAATGCACAACATGGTGTTACTTTGAAAGGCTAT
GGAATAACACATCCAAAAGTTGCCAGCGGATTTGCAGTTATAATTTTTCATATGATTTTT
CTTTCAATTTTGCTGTATTTTAATTTAAAAAGAAAATTATTTTATTAA
>g1356.t1 Gene=g1356 Length=575
MFNNCIKIQNVFKSYQQKLNKKENVLNGISLNVERGQIYALAGSSGCGKTTLLNCLMGMY
EIDSGEIEIFNQQIEFKQISKLSNIIGFMPQQTSLVDNLTIMETLQYFANLQLMDQKNFI
ERFKIISDLLELPAKNSFIKKLSGGEQRRVSLAVTIIHNPQLLILDEPTVGLDFKLRNKI
WNYFEKQTTENKLTILVTTHCMNEVKKSHRCGFMRDGILIEDDKPLKIMEKYETQSFDEA
FYQMCLNENENREIKKLENCDKVKNYKIKESSTRKVRKQIIKALLVKEFHRFKRAYTEIY
MVFIYSIFSILIYNSTFGKIPKDLKLGIVNYEIENYNCDTLPQNNSNQCENKMFLCGFFN
HTEDFKAIFYKSYEDANQDLHDFKIINSITITSGVSILAILQSRMDGVWNRSLLNGVSIT
EILIANFIQYTFYSLIISIELILLLIYIVKVEIVGRIWLAFLLIFGYSIDGFLFGLNCSI
IFKDFISGHYSNIAVISHITLLSGIIWPTEGFSKWLKPLEYILPLAFPLNAQHGVTLKGY
GITHPKVASGFAVIIFHMIFLSILLYFNLKRKLFY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 24 | g1356.t1 | CDD | cd03230 | ABC_DR_subfamily_A | 6 | 219 | 8.12984E-53 |
| 10 | g1356.t1 | Gene3D | G3DSA:3.40.50.300 | - | 2 | 285 | 1.6E-60 |
| 3 | g1356.t1 | PANTHER | PTHR43038 | ATP-BINDING CASSETTE, SUB-FAMILY H, MEMBER 1 | 5 | 260 | 2.0E-108 |
| 6 | g1356.t1 | PANTHER | PTHR43038:SF2 | RH61964P | 5 | 260 | 2.0E-108 |
| 5 | g1356.t1 | PANTHER | PTHR43038 | ATP-BINDING CASSETTE, SUB-FAMILY H, MEMBER 1 | 267 | 391 | 2.0E-108 |
| 8 | g1356.t1 | PANTHER | PTHR43038:SF2 | RH61964P | 267 | 391 | 2.0E-108 |
| 4 | g1356.t1 | PANTHER | PTHR43038 | ATP-BINDING CASSETTE, SUB-FAMILY H, MEMBER 1 | 400 | 572 | 2.0E-108 |
| 7 | g1356.t1 | PANTHER | PTHR43038:SF2 | RH61964P | 400 | 572 | 2.0E-108 |
| 2 | g1356.t1 | Pfam | PF00005 | ABC transporter | 26 | 169 | 2.2E-31 |
| 1 | g1356.t1 | Pfam | PF01061 | ABC-2 type transporter | 281 | 531 | 1.2E-13 |
| 14 | g1356.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 298 | - |
| 21 | g1356.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 299 | 317 | - |
| 17 | g1356.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 318 | 382 | - |
| 19 | g1356.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 383 | 401 | - |
| 12 | g1356.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 402 | 421 | - |
| 23 | g1356.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 422 | 449 | - |
| 15 | g1356.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 450 | 454 | - |
| 22 | g1356.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 455 | 478 | - |
| 11 | g1356.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 479 | 489 | - |
| 20 | g1356.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 490 | 509 | - |
| 16 | g1356.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 510 | 546 | - |
| 18 | g1356.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 547 | 569 | - |
| 13 | g1356.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 570 | 575 | - |
| 30 | g1356.t1 | ProSitePatterns | PS00211 | ABC transporters family signature. | 142 | 156 | - |
| 32 | g1356.t1 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 6 | 241 | 20.788 |
| 31 | g1356.t1 | SMART | SM00382 | AAA_5 | 35 | 226 | 3.9E-10 |
| 9 | g1356.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 3 | 234 | 6.82E-54 |
| 27 | g1356.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 295 | 317 | - |
| 29 | g1356.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 427 | 449 | - |
| 26 | g1356.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 454 | 476 | - |
| 28 | g1356.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 485 | 507 | - |
| 25 | g1356.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 547 | 569 | - |
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 K01990 (ABC-2 type transport system ATP-binding protein)
Pathway
This gene does not belong to any 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. There were no conditions that were differentially expressed