General information for g8101.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative NSFL1 cofactor p47.
Parent gene
- The parent gene g8101 is located on chr_2: 28571091..28572329 (- 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 | g8101 | g8101.t3 | TTS | g8101.t3 | 28571026 | 28571026 |
| chr_2 | g8101 | g8101.t3 | isoform | g8101.t3 | 28571091 | 28572329 |
| chr_2 | g8101 | g8101.t3 | exon | g8101.t3.exon1 | 28571091 | 28571673 |
| chr_2 | g8101 | g8101.t3 | cds | g8101.t3.CDS1 | 28571091 | 28571552 |
| chr_2 | g8101 | g8101.t3 | exon | g8101.t3.exon2 | 28571957 | 28572173 |
| chr_2 | g8101 | g8101.t3 | exon | g8101.t3.exon3 | 28572228 | 28572329 |
| chr_2 | g8101 | g8101.t3 | TSS | g8101.t3 | 28572415 | 28572415 |
Sequences
>g8101.t3 Gene=g8101 Length=902
ATGGCAGATAACGAAGCATTAATAGCGCAATTTATGGATATTACTGGAGCTACTAGAGAA
CGAGCAGAATTTTTCTTGCAGGCCTCAAATTTTGAAGTCGATCTGGCTGTAACTAATTTT
TATGAAAATGGACCGGATCAAGGTGTAAATGTCGATCAAGCAATAATTGACTCAAATAGT
TCTGATGAAGAAGAAAATATCAAGGTGGCAACCAAAAAAGAAAATAAAAGTTCAACCGGT
TTCAGCAATATTGCGACTATGTCATCAGTAAGGAATCAAGAAGATAAAGATGACGAAAAA
GGGCAAGCGTACTATGCTGTCAAGGCTTCACAGTCGATGATGGTGATTTGCGTTCTTATG
AAGAACCTCAAAATAGAGAATTTTTTGAGAGTATCACTCGAAATGAAATTCCAGCTGAAT
TGAGAAAGCAGGGTAAATCTATGGTTCATGTAAATGTGGAAAATCATATGGGTGAGGAAT
ATGTTAAAAAAGCACCGAAATTTAAGGCTTTTACTGGTTCAGGTCATACACTTGGTTCAC
CAACTCCTCTCACTACTGAAGACGCAACAGTACCAAATGTAACAACTAGCAGTGATGGAA
AGTTATCTGCAAACAAACAAGAGAATGAAGCAAAAGCATCTTCAGAATTGAATGTTGATC
AAAATCAGCCGACTACAATGATTTCAATTCGTTTAGCGGATGGTAGTCGTATTTCATCTC
GTTTCAATTTGACACACACCGTTCAAGATATTCGTCAATATATTATAACGGCACGTCCCG
AATATTCTGGTCGATCATTCATGTTACTTACAACTTTTCCAAATAAGGAACTTGCAAATT
CAAGCGACTCAATTCAACAAGCTGGTTTACAAAATGCTGCAATCATGCAACGAATGAAGT
AA
>g8101.t3 Gene=g8101 Length=153
MVHVNVENHMGEEYVKKAPKFKAFTGSGHTLGSPTPLTTEDATVPNVTTSSDGKLSANKQ
ENEAKASSELNVDQNQPTTMISIRLADGSRISSRFNLTHTVQDIRQYIITARPEYSGRSF
MLLTTFPNKELANSSDSIQQAGLQNAAIMQRMK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g8101.t3 | CDD | cd01770 | UBX_UBXN2 | 81 | 151 | 2.58855E-32 |
| 6 | g8101.t3 | Gene3D | G3DSA:3.10.20.90 | - | 15 | 153 | 4.5E-44 |
| 10 | g8101.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 27 | 72 | - |
| 9 | g8101.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 28 | 72 | - |
| 2 | g8101.t3 | PANTHER | PTHR23333:SF20 | GH01724P | 2 | 152 | 4.4E-44 |
| 3 | g8101.t3 | PANTHER | PTHR23333 | UBX DOMAIN CONTAINING PROTEIN | 2 | 152 | 4.4E-44 |
| 1 | g8101.t3 | Pfam | PF00789 | UBX domain | 75 | 150 | 1.2E-16 |
| 11 | g8101.t3 | ProSiteProfiles | PS51399 | SEP domain profile. | 1 | 15 | 9.289 |
| 12 | g8101.t3 | ProSiteProfiles | PS50033 | UBX domain profile. | 74 | 151 | 19.881 |
| 8 | g8101.t3 | SMART | SM00166 | ubx_3 | 73 | 152 | 2.3E-6 |
| 5 | g8101.t3 | SUPERFAMILY | SSF102848 | NSFL1 (p97 ATPase) cofactor p47, SEP domain | 2 | 36 | 3.92E-8 |
| 4 | g8101.t3 | SUPERFAMILY | SSF54236 | Ubiquitin-like | 24 | 151 | 2.71E-28 |
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:0005515 | protein 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.
