General information for g3271.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 g3271 is located on chr_3: 24112579..24114630 (- 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 | g3271 | g3271.t1 | isoform | g3271.t1 | 24112579 | 24114630 |
| chr_3 | g3271 | g3271.t1 | exon | g3271.t1.exon1 | 24112579 | 24112945 |
| chr_3 | g3271 | g3271.t1 | cds | g3271.t1.CDS1 | 24112579 | 24112945 |
| chr_3 | g3271 | g3271.t1 | exon | g3271.t1.exon2 | 24113004 | 24113540 |
| chr_3 | g3271 | g3271.t1 | cds | g3271.t1.CDS2 | 24113004 | 24113540 |
| chr_3 | g3271 | g3271.t1 | exon | g3271.t1.exon3 | 24113598 | 24114374 |
| chr_3 | g3271 | g3271.t1 | cds | g3271.t1.CDS3 | 24113598 | 24114374 |
| chr_3 | g3271 | g3271.t1 | exon | g3271.t1.exon4 | 24114530 | 24114630 |
| chr_3 | g3271 | g3271.t1 | cds | g3271.t1.CDS4 | 24114530 | 24114630 |
| chr_3 | g3271 | g3271.t1 | TSS | g3271.t1 | NA | NA |
| chr_3 | g3271 | g3271.t1 | TTS | g3271.t1 | NA | NA |
Sequences
>g3271.t1 Gene=g3271 Length=1782
ATGTATAAAAATTCTATTCAAGTTAGAAATGTTTATAAAAATTATCACAAAAAGGAAAAT
ATTTTAAATGGAATAAATTTAACAGTAAAAATTGGAGAAATTTATGCATTGATAGGAGCT
TCAGGATGTGGGAAAACAACTCTTTTGAATTGTATGATGGGAATGTATAAAATTGATAGT
GGAAAAATTGAAATTTTCAATCAAAACGTCGAGTTTAAAAAAACTTCAAAACTTGCAAAT
TCCATTGGTTTTATGTCACAACAAATTTCATTCGTTTCTCAATTAACAATTCAAGAAACT
CTTGAATATTTTGGAAATTTACATTTCATTACACGAAAAGCATTAAAAGAGCGAATTTTG
AGTATTTCTGAATTATTAGAATTACCATCATTAAAAACATTTGTTGGAAATTTATCAAAT
AGTGAAAAAAGACGAGTTTCATTTGCTGCTACAATTATTCACATTCCAAAACTTCTAATC
TTAGATGAACCTACTGTAGGACTTGATTTAGAATTTGGTAACAAAATATGGAATTTTTTT
AATGAACAAACAAGTAAAAATAATTTGACAATTTTAATAACGACTCATTGCATGAATGAA
GTTGCAAAAGCTGATTGTTGTGGTTTTATGATGAATGGAAAATTGATTGTAGAAGAGAAA
CCAAACATTTTATTAGAAAAATTTAATGTAGAAACGCTTTATGAAGTTTATTATTTGCTT
TGTTTAAATTCAAATCAATATCAATTTATATGTGAAGAAAATGATGACAATGCATTGAAA
TTGGAATGTAGAAATACAGAATTTTATACAAAATTCAGATTAAGTATTATCAAAGGAATA
ATAGTTAAAGATTTTCATCGTTTTAAAAGAAGTTTTACGGAAATTTTTCTAATTTTCATG
ACTATGTTTGTATTAAGTTGGCTGCATATAACACTTCTTGGACAATATCCTGATGATATT
AAACTTGGAATAATAAATCATGAAAATTTCAATTGTAAAAATGAAACCGTTCCAAATGAG
TGTGGAAATTTGCATTTTTCATGTTCATTTTTAGGCCAAATCAATGGAGTTAAAAAAATA
TTTTATGAATCAAATCAAAAGGCATTTCAGGATTTTAAAAAAAGTAGAATTTCGAGTTTA
ATGATTATTAATGAAAATTTTACAAATTCCTTGATAAACAAAACTTTTGGGGCTCATGAC
ATTGAAGTTTTTCTTGATTATTCAAAATATCATTTTGCAATTCACCTAAAAATTAAAATT
TTCTTAACTCTTCGTGATTATCTTTTGAATTTAACAAAGCACTGCGAAATCACTGATTAC
TTCATGAATCCATACAAAATTGAAGAATTTCTATCAGTAAAATCAGAATTAGATTTTAAT
TTTTCAATACCATATGCACCTAATGCAATTATTTTATATTCTACCATTGCAATTATGACA
TGTTCAGTTTTAGCAATTATTCAATGCCGTAAATGTGGTGATTGGAATCGAAGTTTACTA
AATGGTGTACAAATAACAGAAATTGTTGCAGCTATTGTGTTTCAATATTTAATTTTTGCT
TTTATCATTTCAATGGAAGCAATTTTTTGCTTGACTTATATTTTTAAAATTGAATTTTTT
GGAAATGTTTGGCTTGCTTTCATATTAATTTATATTTATACCATAAATGCTTTTCTTTTT
GGATTCAATTTATCATTAATTTTAGATGATATCACTTCTGCAGGTTATTTGACAATGTGT
TTATTTTCAAGTTTGAATTATATATCAGGTGTCATTTGGTAA
>g3271.t1 Gene=g3271 Length=593
MYKNSIQVRNVYKNYHKKENILNGINLTVKIGEIYALIGASGCGKTTLLNCMMGMYKIDS
GKIEIFNQNVEFKKTSKLANSIGFMSQQISFVSQLTIQETLEYFGNLHFITRKALKERIL
SISELLELPSLKTFVGNLSNSEKRRVSFAATIIHIPKLLILDEPTVGLDLEFGNKIWNFF
NEQTSKNNLTILITTHCMNEVAKADCCGFMMNGKLIVEEKPNILLEKFNVETLYEVYYLL
CLNSNQYQFICEENDDNALKLECRNTEFYTKFRLSIIKGIIVKDFHRFKRSFTEIFLIFM
TMFVLSWLHITLLGQYPDDIKLGIINHENFNCKNETVPNECGNLHFSCSFLGQINGVKKI
FYESNQKAFQDFKKSRISSLMIINENFTNSLINKTFGAHDIEVFLDYSKYHFAIHLKIKI
FLTLRDYLLNLTKHCEITDYFMNPYKIEEFLSVKSELDFNFSIPYAPNAIILYSTIAIMT
CSVLAIIQCRKCGDWNRSLLNGVQITEIVAAIVFQYLIFAFIISMEAIFCLTYIFKIEFF
GNVWLAFILIYIYTINAFLFGFNLSLILDDITSAGYLTMCLFSSLNYISGVIW
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 19 | g3271.t1 | CDD | cd03230 | ABC_DR_subfamily_A | 6 | 215 | 1.21903E-46 |
| 7 | g3271.t1 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 246 | 6.9E-56 |
| 2 | g3271.t1 | PANTHER | PTHR43038 | ATP-BINDING CASSETTE, SUB-FAMILY H, MEMBER 1 | 5 | 245 | 1.3E-92 |
| 4 | g3271.t1 | PANTHER | PTHR43038:SF2 | RH61964P | 5 | 245 | 1.3E-92 |
| 3 | g3271.t1 | PANTHER | PTHR43038 | ATP-BINDING CASSETTE, SUB-FAMILY H, MEMBER 1 | 276 | 593 | 1.3E-92 |
| 5 | g3271.t1 | PANTHER | PTHR43038:SF2 | RH61964P | 276 | 593 | 1.3E-92 |
| 1 | g3271.t1 | Pfam | PF00005 | ABC transporter | 22 | 165 | 5.4E-28 |
| 8 | g3271.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 294 | - |
| 15 | g3271.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 295 | 316 | - |
| 13 | g3271.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 317 | 464 | - |
| 16 | g3271.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 465 | 487 | - |
| 10 | g3271.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 488 | 507 | - |
| 18 | g3271.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 508 | 535 | - |
| 12 | g3271.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 536 | 540 | - |
| 17 | g3271.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 541 | 562 | - |
| 9 | g3271.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 563 | 573 | - |
| 14 | g3271.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 574 | 592 | - |
| 11 | g3271.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 593 | 593 | - |
| 26 | g3271.t1 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 6 | 237 | 19.541 |
| 25 | g3271.t1 | SMART | SM00382 | AAA_5 | 31 | 222 | 1.5E-5 |
| 6 | g3271.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 5 | 230 | 7.24E-50 |
| 22 | g3271.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 291 | 313 | - |
| 21 | g3271.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 465 | 487 | - |
| 20 | g3271.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 507 | 529 | - |
| 24 | g3271.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 544 | 566 | - |
| 23 | g3271.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 573 | 592 | - |
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 |
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