General information for g11965.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Tether containing UBX domain for GLUT4.
Parent gene
- The parent gene g11965 is located on chr_1: 19953238..19954069 (- 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 | g11965 | g11965.t1 | TTS | g11965.t1 | 19952450 | 19952450 |
| chr_1 | g11965 | g11965.t1 | isoform | g11965.t1 | 19952489 | 19954069 |
| chr_1 | g11965 | g11965.t1 | exon | g11965.t1.exon1 | 19952489 | 19952799 |
| chr_1 | g11965 | g11965.t1 | cds | g11965.t1.CDS1 | 19952489 | 19952799 |
| chr_1 | g11965 | g11965.t1 | exon | g11965.t1.exon2 | 19952852 | 19953926 |
| chr_1 | g11965 | g11965.t1 | cds | g11965.t1.CDS2 | 19952852 | 19953926 |
| chr_1 | g11965 | g11965.t1 | exon | g11965.t1.exon3 | 19953992 | 19954069 |
| chr_1 | g11965 | g11965.t1 | cds | g11965.t1.CDS3 | 19953992 | 19954069 |
| chr_1 | g11965 | g11965.t1 | TSS | g11965.t1 | 19954162 | 19954162 |
Sequences
>g11965.t1 Gene=g11965 Length=1464
ATGTCAAGTGTCACTGTTCTAACGCCGCATGGACGTCGACAGGTTGTGAAGATTGATCCA
AACAAAACTATTTTATGGATTCTTGAAGAAGTTTGTAGAAAATATAATGAATTTAAACCT
GAAAATTATGATTTGAAACATCATAATAAAACAGTAGATTTGAGTCAGTTCTTCAGATTT
TCTGGATTACCAAATAATTGTACATTAGAAATGGTTGAGGCAGATAAGAAGAGAATTGAA
CAAGATGTTGTGATTTGCCTTCAATTAGAAGACAATTCTCGTTTGAATGGAAGTTTTCAG
CCTTCAAGTAATCTTTATGATATAATCAATCAAATGGTACCCGAAATACTTCAAAGTGAT
CAGACCAAAATTGTTGTTATATACATGAGAAATGAAATTTATGGTGAAAAATTAAATACA
ACTACATTAAAATCCTTAGGATTGTGCTCTGGTGGCCGTGCATTGTTTAGATTAATTAAA
TCTGATCCTGAAAGTTTAAAAAAGCAGGCAAATGTTAGTGCACCATTGCCTCAGAAGCCT
AAAGAGGAAGTACCAGAAAAACCAAGACCAAAAGGTGTCACAGCTGATTCACCATCTTTT
CAGTTTCAAAGCACTAAACAAATAAAAGAACCTGAAAAAGAAGAAACTATTAAACAAAAA
GAAGAGGAAAAAATGGAAATTGAAGAAGTTCCAATAAATAAAACAGAAGATCAACCATTT
GTAGTAGTTGATGATACAAAGTTTGAATTGATTGAAGAAAAACTCAAAGCTGTAGAACCA
GAACCAGTGATTAATATTCTCGATGAACGCGGTACAATAATTTTTAACTTGGATTCTATA
AACACTTCATCATTAGATTTACCAGACAGCTTCTTTGAACTAACAGAAAGTGACGTTCGA
ATGCTTTACAAAGATTTACGAAAGCAAGTTGAAGAGATTGAAAATCAACCACTCATGACA
GAAGAGTTGAGAAAGCTTGAGGAGAATAAGAAGATATTAAATCAATTATCAACATACAAA
AATTGTGCTATTCGTATTCAATTTCCAGATAGGCATGTGATTCAGACGAAATTTTCTACT
GTAGATAATATTAACAATGTAATTCAATTCATAAGAGAATATCTTATTAATCCTAATATG
GATTTTTATTTATATATAACACCTCCAAAAAATATTCTTGATAAAAATTTGACTCTGGTT
GAGTCTCATTGCGTTCCTTCAGCATTGTTACATTTTGGATGTGATGAGAATGTAAAAGAA
TTTTTGAAACCAGAGTTTCTCAACAAATTATCTTCAGGATTTAGTGCATCGAGAGTTCTT
TTGAGTTCAAACAAGGATAATAATCAACCCAGTAGCAGTACTCCTACTTCTGTTTCTTCA
TCTTCAGTTCCTAAAAATTTTATGGATTCAAAAGTCAGTTCAAAACCTTCAGGTGCACCA
AAATGGTTTAAATTAGGCAACTGA
>g11965.t1 Gene=g11965 Length=487
MSSVTVLTPHGRRQVVKIDPNKTILWILEEVCRKYNEFKPENYDLKHHNKTVDLSQFFRF
SGLPNNCTLEMVEADKKRIEQDVVICLQLEDNSRLNGSFQPSSNLYDIINQMVPEILQSD
QTKIVVIYMRNEIYGEKLNTTTLKSLGLCSGGRALFRLIKSDPESLKKQANVSAPLPQKP
KEEVPEKPRPKGVTADSPSFQFQSTKQIKEPEKEETIKQKEEEKMEIEEVPINKTEDQPF
VVVDDTKFELIEEKLKAVEPEPVINILDERGTIIFNLDSINTSSLDLPDSFFELTESDVR
MLYKDLRKQVEEIENQPLMTEELRKLEENKKILNQLSTYKNCAIRIQFPDRHVIQTKFST
VDNINNVIQFIREYLINPNMDFYLYITPPKNILDKNLTLVESHCVPSALLHFGCDENVKE
FLKPEFLNKLSSGFSASRVLLSSNKDNNQPSSSTPTSVSSSSVPKNFMDSKVSSKPSGAP
KWFKLGN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g11965.t1 | CDD | cd16105 | Ubl_ASPSCR1_like | 4 | 74 | 2.10139E-26 |
| 11 | g11965.t1 | CDD | cd17075 | UBX1_UBXN9 | 82 | 158 | 1.37229E-18 |
| 9 | g11965.t1 | CDD | cd16118 | UBX2_UBXN9 | 342 | 414 | 5.27834E-26 |
| 8 | g11965.t1 | Coils | Coil | Coil | 296 | 316 | - |
| 7 | g11965.t1 | Gene3D | G3DSA:3.10.20.90 | - | 1 | 82 | 1.3E-28 |
| 6 | g11965.t1 | Gene3D | G3DSA:3.10.20.90 | - | 333 | 412 | 1.9E-9 |
| 14 | g11965.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 167 | 218 | - |
| 12 | g11965.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 445 | 473 | - |
| 13 | g11965.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 445 | 487 | - |
| 3 | g11965.t1 | PANTHER | PTHR46467 | TETHER CONTAINING UBX DOMAIN FOR GLUT4 | 1 | 486 | 9.9E-104 |
| 1 | g11965.t1 | Pfam | PF11470 | TUG ubiquitin-like domain | 8 | 71 | 1.5E-21 |
| 2 | g11965.t1 | Pfam | PF00789 | UBX domain | 339 | 408 | 1.0E-5 |
| 15 | g11965.t1 | ProSiteProfiles | PS50033 | UBX domain profile. | 337 | 412 | 10.929 |
| 5 | g11965.t1 | SUPERFAMILY | SSF54236 | Ubiquitin-like | 2 | 76 | 1.52E-23 |
| 4 | g11965.t1 | SUPERFAMILY | SSF54236 | Ubiquitin-like | 314 | 412 | 2.02E-13 |
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 K15627 (tether containing UBX domain for GLUT4)
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.
