General information for g8101.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t1 | TTS | g8101.t1 | 28571026 | 28571026 |
| chr_2 | g8101 | g8101.t1 | isoform | g8101.t1 | 28571091 | 28572329 |
| chr_2 | g8101 | g8101.t1 | exon | g8101.t1.exon1 | 28571091 | 28572173 |
| chr_2 | g8101 | g8101.t1 | cds | g8101.t1.CDS1 | 28571091 | 28572173 |
| chr_2 | g8101 | g8101.t1 | exon | g8101.t1.exon2 | 28572228 | 28572329 |
| chr_2 | g8101 | g8101.t1 | cds | g8101.t1.CDS2 | 28572228 | 28572329 |
| chr_2 | g8101 | g8101.t1 | TSS | g8101.t1 | 28572415 | 28572415 |
Sequences
>g8101.t1 Gene=g8101 Length=1185
ATGGCAGATAACGAAGCATTAATAGCGCAATTTATGGATATTACTGGAGCTACTAGAGAA
CGAGCAGAATTTTTCTTGCAGGCCTCAAATTTTGAAGTCGATCTGGCTGTAACTAATTTT
TATGAAAATGGACCGGATCAAGGTGTAAATGTCGATCAAGCAATAATTGACTCAAATAGT
TCTGATGAAGAAGAAAATATCAAGGTGGCAACCAAAAAAGAAAATAAAAGTTCAACCGGT
TTCAGCAATATTGCGACTATGTCATCAGTAAGGAATCAAGAAGATAAAGATGACGAAAAA
GGGCAAGCGTACTATGCTGGTGGATCTGAGCATTCAGGTCAACAAGTTCTCGGTCCACCA
CGTAAAAATCCAATAAAAGATGTGATCTCTCAAGTTTTTCAAAAAGCTCAATCGGGTAAT
ATAGAGCAATTCGATCCTGATGATGATGATGATGATGACGAATCTCCAAATTCACGTCCT
ACATTTAGTGGAACTGGTTATCGTTTAGGGCACACTGACAATGACACTCAAACTGTTGCA
TCATCTTCATCTAGTGGTCGTAAAAAACATGAGCATGACACAGTAACTGTAAAAGTTTAT
AGTCAAGGCTTCACAGTCGATGATGGTGATTTGCGTTCTTATGAAGAACCTCAAAATAGA
GAATTTTTTGAGAGTATCACTCGAAATGAAATTCCAGCTGAATTGAGAAAGCAGGGTAAA
TCTATGGTTCATGTAAATGTGGAAAATCATATGGGTGAGGAATATGTTAAAAAAGCACCG
AAATTTAAGGCTTTTACTGGTTCAGGTCATACACTTGGTTCACCAACTCCTCTCACTACT
GAAGACGCAACAGTACCAAATGTAACAACTAGCAGTGATGGAAAGTTATCTGCAAACAAA
CAAGAGAATGAAGCAAAAGCATCTTCAGAATTGAATGTTGATCAAAATCAGCCGACTACA
ATGATTTCAATTCGTTTAGCGGATGGTAGTCGTATTTCATCTCGTTTCAATTTGACACAC
ACCGTTCAAGATATTCGTCAATATATTATAACGGCACGTCCCGAATATTCTGGTCGATCA
TTCATGTTACTTACAACTTTTCCAAATAAGGAACTTGCAAATTCAAGCGACTCAATTCAA
CAAGCTGGTTTACAAAATGCTGCAATCATGCAACGAATGAAGTAA
>g8101.t1 Gene=g8101 Length=394
MADNEALIAQFMDITGATRERAEFFLQASNFEVDLAVTNFYENGPDQGVNVDQAIIDSNS
SDEEENIKVATKKENKSSTGFSNIATMSSVRNQEDKDDEKGQAYYAGGSEHSGQQVLGPP
RKNPIKDVISQVFQKAQSGNIEQFDPDDDDDDDESPNSRPTFSGTGYRLGHTDNDTQTVA
SSSSSGRKKHEHDTVTVKVYSQGFTVDDGDLRSYEEPQNREFFESITRNEIPAELRKQGK
SMVHVNVENHMGEEYVKKAPKFKAFTGSGHTLGSPTPLTTEDATVPNVTTSSDGKLSANK
QENEAKASSELNVDQNQPTTMISIRLADGSRISSRFNLTHTVQDIRQYIITARPEYSGRS
FMLLTTFPNKELANSSDSIQQAGLQNAAIMQRMK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g8101.t1 | CDD | cd14348 | UBA_p47 | 5 | 44 | 1.76999E-12 |
| 12 | g8101.t1 | CDD | cd01770 | UBX_UBXN2 | 322 | 392 | 2.85694E-30 |
| 10 | g8101.t1 | Gene3D | G3DSA:1.10.8.10 | DNA helicase RuvA subunit | 2 | 44 | 1.1E-13 |
| 11 | g8101.t1 | Gene3D | G3DSA:3.30.420.210 | - | 192 | 254 | 1.2E-20 |
| 9 | g8101.t1 | Gene3D | G3DSA:3.10.20.90 | - | 256 | 394 | 6.4E-43 |
| 19 | g8101.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 72 | 98 | - |
| 17 | g8101.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 73 | 90 | - |
| 16 | g8101.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 138 | 194 | - |
| 21 | g8101.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 158 | 184 | - |
| 18 | g8101.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 268 | 312 | - |
| 20 | g8101.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 269 | 312 | - |
| 4 | g8101.t1 | PANTHER | PTHR23333:SF20 | GH01724P | 1 | 393 | 8.5E-97 |
| 5 | g8101.t1 | PANTHER | PTHR23333 | UBX DOMAIN CONTAINING PROTEIN | 1 | 393 | 8.5E-97 |
| 3 | g8101.t1 | Pfam | PF14555 | UBA-like domain | 5 | 46 | 3.5E-13 |
| 1 | g8101.t1 | Pfam | PF08059 | SEP domain | 197 | 270 | 1.8E-21 |
| 2 | g8101.t1 | Pfam | PF00789 | UBX domain | 316 | 391 | 8.3E-16 |
| 22 | g8101.t1 | ProSiteProfiles | PS51399 | SEP domain profile. | 192 | 256 | 29.226 |
| 23 | g8101.t1 | ProSiteProfiles | PS50033 | UBX domain profile. | 315 | 392 | 19.881 |
| 14 | g8101.t1 | SMART | SM00553 | faf_3 | 189 | 282 | 6.4E-29 |
| 15 | g8101.t1 | SMART | SM00166 | ubx_3 | 314 | 393 | 2.3E-6 |
| 8 | g8101.t1 | SUPERFAMILY | SSF46934 | UBA-like | 3 | 44 | 5.78E-8 |
| 7 | g8101.t1 | SUPERFAMILY | SSF102848 | NSFL1 (p97 ATPase) cofactor p47, SEP domain | 186 | 277 | 2.09E-27 |
| 6 | g8101.t1 | SUPERFAMILY | SSF54236 | Ubiquitin-like | 265 | 392 | 5.56E-27 |
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 transcript has been annotated with K14012 (UBX domain-containing protein 1)
Pathway
- This transcript belongs to the following pathways
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.
