General information for g10039.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Ataxin-2-like protein.
Parent gene
- The parent gene g10039 is located on chr_1: 6916961..6919766 (+ 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_1 | g10039 | g10039.t6 | isoform | g10039.t6 | 6916961 | 6918412 |
| chr_1 | g10039 | g10039.t6 | exon | g10039.t6.exon1 | 6916961 | 6917543 |
| chr_1 | g10039 | g10039.t6 | cds | g10039.t6.CDS1 | 6917201 | 6917543 |
| chr_1 | g10039 | g10039.t6 | exon | g10039.t6.exon2 | 6917610 | 6918412 |
| chr_1 | g10039 | g10039.t6 | cds | g10039.t6.CDS2 | 6917610 | 6918412 |
| chr_1 | g10039 | g10039.t6 | TSS | g10039.t6 | NA | NA |
| chr_1 | g10039 | g10039.t6 | TTS | g10039.t6 | NA | NA |
Sequences
>g10039.t6 Gene=g10039 Length=1386
CTTGAGGTGCCTCATCGCTATCAGAATGGCGCAGAGGACGAAAAAATAAACGTAAACACA
GTACAGGATAATTTGATTATCAAATTGTGTGACATTGTTACAATTGAAGCCAAAGATGTT
GATTTAGAATATCCAATACGTGATGCATTTCTTGATTCGAGTATTGCGTCGCGAGTAAAT
GGTCCAAACCGTCATGGCATTGAACGTGAATTACAGCCATGGAATGATGGCATCGATAAT
ATGAATGGTGATGCTGGAAAGAATCTAGAATTAGACACGAAAACAAATGGATGGGATGCA
ACTGAAATGTTTCAATATAATGAAAAAGAATATGGCATTAAGACGACATTTAAAGATAAT
TTGGAAAGTTATACAGTACAAATTGATCGAAAAGATACGCAAGATTATCGTAAGCAAGAA
CTCGAAGCAGAACGCATTGCAAATGAAATTGAAAATAATCCAACAACTAAGGAGCGTTTA
GATGTTGAAAATGGTGATGAAGAAGCAGCTTTTGCTGCTGTAATTCGTCCAGATGATCAA
AATAATTCTAATAGCAATATGATGAATAATAACAATGATAAGATGACACCACCACCAGCA
TCATCACAAAAATATATTCCGAAACAGCAGCGTAATCAAGGAGGTAAAATGATGTCAAAT
AATAATAAAATTTATTCAAAACCGATGCAAACATCAGGATCAGGTCAACAACAGCAGCAG
CAACAGCAACAACAGCAACCAGTAGTGCAGCAAACATTAAATGCAGGTGGATTCAAAACA
ATGACTATAAATCCACTACCCCAATTCAATCAACCACCACCATCGCACTATGTTCCATCA
TCACAACAAAATCAACAGAGCTTAAATAATGCTGATGGAAATAAAATAAATGGTGATGGT
CGAGGTGAAATGGTTAGAGATAATAGCAATAATAACAACAATAATAGTAATAATAGTAAC
AATAAATCTATGCCACCGCCACGAACGAATATGAGAATAATGAATCCACATATTCCCGTT
TCCTTTTCGGAGCCACCGCCAAATTTGACTCAAGTTTCAAATCAACATATGGGCAAACCA
ATAAGCATGCATATTCCACCACCACATTTGCAAACCGTTCAAGTGCAAACACCTGATGGT
CAGCAATCGACTGCCGTTCATGTCCTACCACAACCAGTTGTTGTAGTTCATCAACAAATT
CCGATTCATGCTGCACCGCCGCCTCAACCACAGAGACAACAACGTGATCCAACAATGCGC
TCTCGAAATGATGAAATAAGATCTCTAAGACAATTTCATAATGATTTTCAAATGGCTCCA
CAACAGCAGCAACAGCAAACACAGACTTCTGCACCACCTCAAGTGCCCCAACAAACGTCA
CAAACA
>g10039.t6 Gene=g10039 Length=382
MNGDAGKNLELDTKTNGWDATEMFQYNEKEYGIKTTFKDNLESYTVQIDRKDTQDYRKQE
LEAERIANEIENNPTTKERLDVENGDEEAAFAAVIRPDDQNNSNSNMMNNNNDKMTPPPA
SSQKYIPKQQRNQGGKMMSNNNKIYSKPMQTSGSGQQQQQQQQQQQPVVQQTLNAGGFKT
MTINPLPQFNQPPPSHYVPSSQQNQQSLNNADGNKINGDGRGEMVRDNSNNNNNNSNNSN
NKSMPPPRTNMRIMNPHIPVSFSEPPPNLTQVSNQHMGKPISMHIPPPHLQTVQVQTPDG
QQSTAVHVLPQPVVVVHQQIPIHAAPPPQPQRQQRDPTMRSRNDEIRSLRQFHNDFQMAP
QQQQQQTQTSAPPQVPQQTSQT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g10039.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 149 | 169 | - |
| 4 | g10039.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 323 | 382 | - |
| 7 | g10039.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 337 | 351 | - |
| 6 | g10039.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 354 | 382 | - |
| 2 | g10039.t6 | PANTHER | PTHR12854 | ATAXIN 2-RELATED | 14 | 211 | 1.8E-20 |
| 1 | g10039.t6 | Pfam | PF06741 | LsmAD domain | 31 | 96 | 7.6E-13 |
| 3 | g10039.t6 | SMART | SM01272 | LsmAD_2 | 31 | 97 | 2.9E-27 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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