General information for g8555.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative ABC transporter G family member 20.
Parent gene
- The parent gene g8555 is located on chr_2: 31282563..31283511 (- 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 | g8555 | g8555.t1 | isoform | g8555.t1 | 31282563 | 31283511 |
| chr_2 | g8555 | g8555.t1 | exon | g8555.t1.exon1 | 31282563 | 31283349 |
| chr_2 | g8555 | g8555.t1 | cds | g8555.t1.CDS1 | 31282563 | 31283349 |
| chr_2 | g8555 | g8555.t1 | exon | g8555.t1.exon2 | 31283405 | 31283511 |
| chr_2 | g8555 | g8555.t1 | cds | g8555.t1.CDS2 | 31283405 | 31283511 |
| chr_2 | g8555 | g8555.t1 | TSS | g8555.t1 | NA | NA |
| chr_2 | g8555 | g8555.t1 | TTS | g8555.t1 | NA | NA |
Sequences
>g8555.t1 Gene=g8555 Length=894
ATGTCAAGCATTCAAGTTCGTAATTTGACTAAAAGTTATCAAGAATTTGGAAAAAGATCA
GAAAATGTTTTATGCAATTTCAATTTAAGAATAAAATATGGATCAATATATTCATTAGTT
GGTTCATCAGGATGTGGAAAAACAACATTCATAAATTGTCTCTTAGCCATGCAAAAGATT
GACAAAGGAGAAATTAAAATTTTCAATCAAAAAGTAGAATATCCAAATCTTAATGGTCTT
TCTAAACTTATAGGATATATGCCACAGCATATTACACTGGCTTCACAATTGTCAATAAAT
GAAACTTTTCATTATTTTGCATCTTTACAATTGATCGATGATAAAACTTTTAAAGAACGT
TCTGAAATGCTTTTTGAGTTGCTCTGTTTGCCATCAAAAGATGCCTTGATAGGAAAATTA
TCAAATGGTCAACAACGAAGAGTTTCATTTGCTGTTGCTGTCTTACATGATCCACGAATA
CTCATTCTTGATGAACCTACTGTTGGACTTGATGTTGAAATAAGACAAAGAATTTGGAAA
TTTCTTCAAAAACAATCGAGTGAAAAAAATGTCACAGTTCTTTTCACTACTCAATATTTA
AATGAAATATCTCGAGCACATTGCTGTGGATTTTTAAGAAGAGGAAAATTGATAATTGAA
AATTCACATGATAAAATATTAGAGCAACTTAATGTCAGCAATATTGATGAAGCTTTTTAC
CAAATTTGTTATTTAGATGAAAATAATAAAATTTCAAATATTTCTGCTAGTTTTAATGAA
ACTTATCACAATTTTGAAGATAAATCTATTAAAAACAACAAGATAATTAGATGGCAAGTG
TTAAAAGGATTATTGATTAAGGAATGGAAAAGAATGAAACGCAATCCTAAGTAA
>g8555.t1 Gene=g8555 Length=297
MSSIQVRNLTKSYQEFGKRSENVLCNFNLRIKYGSIYSLVGSSGCGKTTFINCLLAMQKI
DKGEIKIFNQKVEYPNLNGLSKLIGYMPQHITLASQLSINETFHYFASLQLIDDKTFKER
SEMLFELLCLPSKDALIGKLSNGQQRRVSFAVAVLHDPRILILDEPTVGLDVEIRQRIWK
FLQKQSSEKNVTVLFTTQYLNEISRAHCCGFLRRGKLIIENSHDKILEQLNVSNIDEAFY
QICYLDENNKISNISASFNETYHNFEDKSIKNNKIIRWQVLKGLLIKEWKRMKRNPK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g8555.t1 | CDD | cd03230 | ABC_DR_subfamily_A | 4 | 217 | 0.000 |
| 5 | g8555.t1 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 249 | 0.000 |
| 2 | g8555.t1 | PANTHER | PTHR43038 | ATP-BINDING CASSETTE, SUB-FAMILY H, MEMBER 1 | 3 | 245 | 0.000 |
| 1 | g8555.t1 | Pfam | PF00005 | ABC transporter | 26 | 167 | 0.000 |
| 6 | g8555.t1 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 4 | 239 | 18.761 |
| 4 | g8555.t1 | SMART | SM00382 | AAA_5 | 33 | 223 | 0.000 |
| 3 | g8555.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 4 | 231 | 0.000 |
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