General information for g7138.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Tumor susceptibility gene 101 protein.
Parent gene
- The parent gene g7138 is located on chr_2: 21466955..21470095 (+ 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 | g7138 | g7138.t1 | TSS | g7138.t1 | 21465600 | 21465600 |
| chr_2 | g7138 | g7138.t1 | isoform | g7138.t1 | 21465703 | 21467150 |
| chr_2 | g7138 | g7138.t1 | exon | g7138.t1.exon1 | 21465703 | 21465744 |
| chr_2 | g7138 | g7138.t1 | cds | g7138.t1.CDS1 | 21465703 | 21465744 |
| chr_2 | g7138 | g7138.t1 | exon | g7138.t1.exon2 | 21465849 | 21465999 |
| chr_2 | g7138 | g7138.t1 | cds | g7138.t1.CDS2 | 21465849 | 21465999 |
| chr_2 | g7138 | g7138.t1 | exon | g7138.t1.exon3 | 21466068 | 21466902 |
| chr_2 | g7138 | g7138.t1 | cds | g7138.t1.CDS3 | 21466068 | 21466902 |
| chr_2 | g7138 | g7138.t1 | exon | g7138.t1.exon4 | 21466964 | 21467150 |
| chr_2 | g7138 | g7138.t1 | cds | g7138.t1.CDS4 | 21466964 | 21467150 |
| chr_2 | g7138 | g7138.t1 | TTS | g7138.t1 | 21467312 | 21467312 |
Sequences
>g7138.t1 Gene=g7138 Length=1215
ATGGCAATGACACCAGCACAATTGACAAAATATCTTTCAAAGTATAAAAACCTCAATGCT
ACTAAAAAGGATGTGCTACAAGCATTAGAACAATATCGTGCACTTACTTTTCGTCAAGAT
TCATACGTGTTCAATGATGGTACAAGAAAAGATTTGTTAAATCTAAGTGGTACTATTCCT
GTTATATACAAAAAGAATACTTATCACATCCCTGTTTGTATTTGGATTATGGATACTCAT
CCATCAAATGCACCAATTTGTTATGTGACACCCACATCTGACATGCATATCAAAGTTAGC
ATGTATGTTGATCATAATGGAAAAGTTTATCTTCCATATTTGCATGATTGGTCACCTAAT
ACAAGTGATCTTTTGGGATTGATTCAAGTGATGATTGTTACATTTGGTGAACATCCACCA
GTTTATTCGAAACCAAAGGAATCAGTAACACCTTATCCCTCACAAACACCCTTTATGCCA
CAACCTGGTATAAATCAGTCTTCATTCCAATATCCTCCTCAATCTTCAAGCGCTTATCCA
CCTTACCCGACACCTAGTGGTGCAACTAATTTCGGTTCTTTTCCTTATCCTCCTCAAACG
AATGCAAGTCCTTATCCTCCTTCAACGGGTTTTATGCCATCAATGCCACAAAATTCATTC
AACTCTCCAACACAGAGTAATAATAGTGCAGCATCATCAGGCACAGGAACAATTACTGAA
GAACACATTAAATTGTCACTTATTTCTGCTGTTGAAGACAAAATGAGACGTCGAATTCAA
GAAAAAGTCAATCAATATCAAGCAGAAATACAGACATTAAAGCGAACAAAGCAAGAACTC
GTTGAAGGTCAAAATAAATTGTCAGAAATCATTAATAAATTGGAACGCGATGAAACAGAA
CTGAAGAAAAATATTCAATTATTGCACGATAAAGATGTTGAGTTAGCAAAATCTTTAGAG
CAACTAGAACAGAACGATGAAATTGATGTAGACGAAGCTGTAACCACAACAGCTCCTCTT
TATAAACAATTAATCAACGCTTATGCTGAAGAAGCTGCTATTGAAGATGCCATTTATTAT
TTGGGCGAAGCTCTGCGAAAGGGAGTTATCGATTTGGAAGTATTTTTAAAGCAAGTTAGA
CAGCTCGCTCGAAAGCAGTTTATGAATCGTGCTCTCATGCAAAAATGCAGACAAAAGGCT
GGACTGGCTGGTTAA
>g7138.t1 Gene=g7138 Length=404
MAMTPAQLTKYLSKYKNLNATKKDVLQALEQYRALTFRQDSYVFNDGTRKDLLNLSGTIP
VIYKKNTYHIPVCIWIMDTHPSNAPICYVTPTSDMHIKVSMYVDHNGKVYLPYLHDWSPN
TSDLLGLIQVMIVTFGEHPPVYSKPKESVTPYPSQTPFMPQPGINQSSFQYPPQSSSAYP
PYPTPSGATNFGSFPYPPQTNASPYPPSTGFMPSMPQNSFNSPTQSNNSAASSGTGTITE
EHIKLSLISAVEDKMRRRIQEKVNQYQAEIQTLKRTKQELVEGQNKLSEIINKLERDETE
LKKNIQLLHDKDVELAKSLEQLEQNDEIDVDEAVTTTAPLYKQLINAYAEEAAIEDAIYY
LGEALRKGVIDLEVFLKQVRQLARKQFMNRALMQKCRQKAGLAG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g7138.t1 | Coils | Coil | Coil | 15 | 35 | - |
| 9 | g7138.t1 | Coils | Coil | Coil | 256 | 311 | - |
| 7 | g7138.t1 | Gene3D | G3DSA:3.10.110.10 | Ubiquitin Conjugating Enzyme | 1 | 145 | 1.2E-55 |
| 3 | g7138.t1 | PANTHER | PTHR23306 | TUMOR SUSCEPTIBILITY GENE 101 PROTEIN-RELATED | 1 | 403 | 3.2E-126 |
| 4 | g7138.t1 | PANTHER | PTHR23306:SF17 | TUMOR SUSCEPTIBILITY GENE 101 PROTEIN | 1 | 403 | 3.2E-126 |
| 1 | g7138.t1 | Pfam | PF05743 | UEV domain | 21 | 141 | 4.9E-43 |
| 2 | g7138.t1 | Pfam | PF09454 | Vps23 core domain | 332 | 395 | 1.9E-28 |
| 10 | g7138.t1 | ProSiteProfiles | PS51322 | UEV domain profile. | 2 | 145 | 50.393 |
| 11 | g7138.t1 | ProSiteProfiles | PS51312 | Steadiness box (SB) domain profile. | 338 | 404 | 14.507 |
| 5 | g7138.t1 | SUPERFAMILY | SSF54495 | UBC-like | 6 | 145 | 7.97E-36 |
| 6 | g7138.t1 | SUPERFAMILY | SSF140111 | Endosomal sorting complex assembly domain | 339 | 399 | 6.21E-22 |
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:0006464 | cellular protein modification process | BP |
| GO:0015031 | protein transport | BP |
KEGG
Orthology
- This transcript has been annotated with K12183 (ESCRT-I complex subunit TSG101)
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.
