General information for g800.t157
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Nucleoporin SEH1.
Parent gene
- The parent gene g800 is located on chr_3: 6094101..6095287 (- 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 | g800 | g800.t157 | TTS | g800.t157 | 6094022 | 6094022 |
| chr_3 | g800 | g800.t157 | isoform | g800.t157 | 6094101 | 6095287 |
| chr_3 | g800 | g800.t157 | exon | g800.t157.exon1 | 6094101 | 6094964 |
| chr_3 | g800 | g800.t157 | cds | g800.t157.CDS1 | 6094101 | 6094631 |
| chr_3 | g800 | g800.t157 | exon | g800.t157.exon2 | 6095017 | 6095161 |
| chr_3 | g800 | g800.t157 | exon | g800.t157.exon3 | 6095219 | 6095287 |
| chr_3 | g800 | g800.t157 | TSS | g800.t157 | 6095387 | 6095387 |
Sequences
>g800.t157 Gene=g800 Length=1078
ATGAGTTCAATCGTTCATACTGAGCACAGAGATGTTATCCACGATTGCAGTTATGATTAT
TATGGCCAAAGAATGGCAACATGTTCTTCAGATCAAACAATTAAAATATGGGAGCAGAAT
GAGAAAGGTCAGGGACAATGGATTGTTTCAGCAAGTTGGAAAGCACATAGTGGATCTATT
TGGCGTTTAAGTTGGGCTCATCCTGAATTTGTAAGGAAGTGTCATTGCGTCAGCGTCATT
TGACAGAACTGCGAGTGTTTGGGAAGAAACAGCAGAACAAAAGCCTACACCAAGCTCTAC
GCCTGCAAAACGATGGATTCGAAGGACTAACCTTGTCGATAGCAGAACTTCAGTAACAGA
TGTCAAATTTTCTCCAAAAAATCTTGGTCTTGTCTTAGCAACTTCATCATCTGATGGAAT
TATCAGAATATATGAGGCACCAGATATATGCAATTTGTCACAATGGACTTTACAACATGA
GATTTTATGCAAGTTACCACTTTCTTCTCTTAGTTGGAATCCATCTCTATTTCGTGCTCA
TGCACCTATGATAGCTGCTGCAAGTGATGTTGCAACTTCAAATGAACCAAAAGTGTTTGT
TTTTGAATATAGTGAACTTAATAGACGTTGGACAAAAACTGAAAGCATAAATGTCACTGA
ACCAGTTCATTCTATCGAATTTGCGCCAAATGTTGGAAGAAGCTATCATATTCTTGCAGT
CGCATCGAAAGACGTTAGCATTTTTAATTTAAAACCCATTGTGGAGCAAACTGGAACTTC
AAGATTCGAAGTGTCACAAGCAGCTCAATTCAATGATAATTTTTGTACTGTTTGGAAAGT
AACTTGGAATGTAACTGGCACAATGTTAGCAACAAGTTCTGATGATGGATATGTAAGAAT
TTGGAGAATGAATTATCAAAAACTTTTCAAATGCATTTGTTCATATAAGCCAGATAGCAG
TAGTGTCAGTCATCCATTAGATTCACAAACAGCAGCCATAATCAATTCCACAACAACTAA
ATTCTTCAAAAAAGGAGTTGGCACTTTTGTAGCATCAAATCAAATACAACAACATTAA
>g800.t157 Gene=g800 Length=176
MIAAASDVATSNEPKVFVFEYSELNRRWTKTESINVTEPVHSIEFAPNVGRSYHILAVAS
KDVSIFNLKPIVEQTGTSRFEVSQAAQFNDNFCTVWKVTWNVTGTMLATSSDDGYVRIWR
MNYQKLFKCICSYKPDSSSVSHPLDSQTAAIINSTTTKFFKKGVGTFVASNQIQQH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g800.t157 | Gene3D | G3DSA:2.130.10.10 | - | 2 | 136 | 0.000 |
| 1 | g800.t157 | PANTHER | PTHR11024 | NUCLEAR PORE COMPLEX PROTEIN SEC13 / SEH1 FAMILY MEMBER | 6 | 136 | 0.000 |
| 2 | g800.t157 | PANTHER | PTHR11024:SF3 | NUCLEOPORIN SEH1 | 6 | 136 | 0.000 |
| 7 | g800.t157 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 88 | 129 | 9.599 |
| 8 | g800.t157 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 88 | 122 | 9.940 |
| 5 | g800.t157 | SMART | SM00320 | WD40_4 | 27 | 67 | 160.000 |
| 4 | g800.t157 | SMART | SM00320 | WD40_4 | 81 | 120 | 0.006 |
| 3 | g800.t157 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 11 | 159 | 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:1904263 | positive regulation of TORC1 signaling | BP |
| GO:0005515 | protein binding | MF |
| GO:0005198 | structural molecule activity | 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.
