General information for g5790.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative UBX domain-containing protein 6.
Parent gene
- The parent gene g5790 is located on chr_2: 11944509..11945661 (+ 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 | g5790 | g5790.t2 | TSS | g5790.t2 | 11943694 | 11943694 |
| chr_2 | g5790 | g5790.t2 | isoform | g5790.t2 | 11944127 | 11945661 |
| chr_2 | g5790 | g5790.t2 | exon | g5790.t2.exon1 | 11944127 | 11945068 |
| chr_2 | g5790 | g5790.t2 | cds | g5790.t2.CDS1 | 11944127 | 11945068 |
| chr_2 | g5790 | g5790.t2 | exon | g5790.t2.exon2 | 11945153 | 11945282 |
| chr_2 | g5790 | g5790.t2 | exon | g5790.t2.exon3 | 11945341 | 11945488 |
| chr_2 | g5790 | g5790.t2 | exon | g5790.t2.exon4 | 11945559 | 11945661 |
| chr_2 | g5790 | g5790.t2 | TTS | g5790.t2 | 11945754 | 11945754 |
Sequences
>g5790.t2 Gene=g5790 Length=1323
ATGAGTTCGGTAGGAGCTAAAGTTAAAAAGTTTTTTGCTAAGAAAAAGTCGGACGCGAAA
TTTGCTAAAGCGGGACCTGGAAGAAAATTGACAGGTGATGATGGTGGAAGTAGTAGCAGA
GATAGTAAACCCAAAGATAAAGATGCATATGTCCCTATAAAAAGAGATGATTTGACTGAT
GAAATGAAGAAAGCTCGTGATGCAGCATTGGAAAGAATGAATAAAACTTCTAATACACCA
TCTTTTGATCTTTCGCTTAAAGCTATAAAAGAAAAAGCTCGAAAAGAGCTTGAAGAAGAG
AAAGTAAGAAAAGTTGAAAATGAAATGAGTAATTTAAAAATAAATGAAGAACCGAAACAA
GACGAGAACACCATTGATATAAATTTTACATGTTCTCTTATATCTGATGAAATACTACCT
AAAAAGGAATGGAAACAAAAAATCAAAGATTTCTTACATGAGCAACTTCAACTTGCATTA
AGCAATAGCACTGATCATCTTGATCCAGGAATTACATCTTGTCTTATTATAAAGAGTTGC
AATCCTATCGAGCGTTCACAAGATTGCGTTGAGACACTCAAAAAGTATCTCTCAAATATT
ATTCAAGAACCATCGGAAGTTAAATTTCATAAAATTCGTATGACTAACAGAATTTTTTGT
GATAAAGTCGCCAACGTTGAAGGCTCATCGGAATTTTTAAAAAATGCTGGCTTTAGTGAG
CAGGTCATTGATGGTGAAAGTTTCCTTGTTTGGTCGCCAGAAACATCAATAGAACATCTT
TTAAAACAAATCGAATATTTAAATGAATGCGAACCAATTCAACTAGAACTTGATCGTAAC
ATTCAAGTTTTGCTACCTTCGCAAAATAATCAGCCTTCGCTATCTCAAGATTTTTTCAAG
CTTACCGCAGAAGAACTTAAGAGAGAACAAACAAATAAGTAAGACTTCAGCCGTTGAAGA
TGCTATGGTTTTAAAAACAAAGGCAATGCGTGAAAAAGAGCAAGAAAGATTTGTTAAAAA
ATTCAAATACTCGGTTATTAGAGTACGTTTTCCTGATGGCCTATTCTTACAAGGAACATT
TTCGGTTTATGAAAAACTATCTAATATATATGAGTTTGTTGCTAGTCAATTGCAACATGA
ATCTGCTGAATTTTCTTTACTTTCACCTGATGGTGTAAAATTCACTGATGAAGATCAAGG
AAAGACACTTTATGCATTAAATTAGTCCCAAATTGCATTCTGAAGTTTACGTATGAAAAT
GAGTCTAAATCATTCAACGAATATCTAAAAGATGAAGCGTTAATGCTTGTTAGACCAGTA
TAA
>g5790.t2 Gene=g5790 Length=313
MSSVGAKVKKFFAKKKSDAKFAKAGPGRKLTGDDGGSSSRDSKPKDKDAYVPIKRDDLTD
EMKKARDAALERMNKTSNTPSFDLSLKAIKEKARKELEEEKVRKVENEMSNLKINEEPKQ
DENTIDINFTCSLISDEILPKKEWKQKIKDFLHEQLQLALSNSTDHLDPGITSCLIIKSC
NPIERSQDCVETLKKYLSNIIQEPSEVKFHKIRMTNRIFCDKVANVEGSSEFLKNAGFSE
QVIDGESFLVWSPETSIEHLLKQIEYLNECEPIQLELDRNIQVLLPSQNNQPSLSQDFFK
LTAEELKREQTNK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g5790.t2 | Coils | Coil | Coil | 87 | 115 | - |
| 7 | g5790.t2 | Gene3D | G3DSA:1.20.58.2190 | - | 173 | 269 | 3.6E-22 |
| 5 | g5790.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 17 | 61 | - |
| 6 | g5790.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 34 | 61 | - |
| 2 | g5790.t2 | PANTHER | PTHR23153 | UBX-RELATED | 9 | 312 | 7.1E-71 |
| 1 | g5790.t2 | Pfam | PF09409 | PUB domain | 184 | 258 | 1.3E-21 |
| 4 | g5790.t2 | SMART | SM00580 | PGNneu | 188 | 252 | 1.2E-10 |
| 3 | g5790.t2 | SUPERFAMILY | SSF143503 | PUG domain-like | 168 | 280 | 3.53E-28 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5790/g5790.t2; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5790.t2.fa.iupred3.txt does not exist
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.
