General information for g496.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g496 is located on chr_3: 3739193..3757954 (- 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 | g496 | g496.t1 | isoform | g496.t1 | 3739193 | 3757954 |
| chr_3 | g496 | g496.t1 | exon | g496.t1.exon1 | 3739193 | 3740235 |
| chr_3 | g496 | g496.t1 | cds | g496.t1.CDS1 | 3739193 | 3740235 |
| chr_3 | g496 | g496.t1 | exon | g496.t1.exon2 | 3741153 | 3741315 |
| chr_3 | g496 | g496.t1 | cds | g496.t1.CDS2 | 3741153 | 3741315 |
| chr_3 | g496 | g496.t1 | exon | g496.t1.exon3 | 3757817 | 3757954 |
| chr_3 | g496 | g496.t1 | cds | g496.t1.CDS3 | 3757817 | 3757954 |
| chr_3 | g496 | g496.t1 | TSS | g496.t1 | 3758573 | 3758573 |
| chr_3 | g496 | g496.t1 | TTS | g496.t1 | NA | NA |
Sequences
>g496.t1 Gene=g496 Length=1344
ATGATACAGAGGCACAATAGTAATATTCAAAATAATAGTAGCAATAATAGTTCGAATTTT
AACATAATTAATGCCACTGAGCTTGAACAGCATATAATGAATGGATTAAATATGAAAAGG
AAGCCGGACGCTAATCTGGCAAGCATAAGTCAAGAGGAATTCTTTACCAAATATAATGAA
TATTTGAGCAAAGTAAATTATCGCATAAAGCGTTCAGCAAAGTTGTATGGTGATGACATC
ACGAATATCGTCTTTGATGATGACAATGAATTTAAAAAAATATTTGCCTTCAAACATTCG
AATCAATCGAATGTTCTAGGAAGTCAAAGAAAACGTCGTTCAACGAGGGAGGAAGACATA
ACATCACTAGCATTTGAAATTGAGGACAAAAGTGATCTACCTACAGTTATAGAACAAGCA
ACTCTCAGTATTTTCCTTACAAACGATTACGACCACGCAACTTCAACTCATCCGCCTGCT
ACAGAAACGGAAAGTCATCTTGAGTATGACGATAGCAGCAGCTCAGGCTCAGACTTATCA
CCAAAGAAATTAACTATTAAACCTAATAGCAAATCTCATCATTTAAGGCATCATAATCAT
CATCATCGTAATAAAATTCATATCAATAAAAATTCACAAGCAATACTGAAATTGCATGTC
TACCAAACTAATTCTCATGAAGGTCGAACATTTCTATTTACTAAGGATCTAACGATAAGC
CCAAACTCTGATGACACACATATCGCTTTTAGCAAATGGATTCAACTCGATTTAACCTCA
GTTGTAAGGACATGGCTACAAGGAAACGAAAAAACATTCAATATTGACATTTATTGTGAA
ATGTGCTCAAAATATGGCATTTCAATTATCAATGAAGGCACTAGTCAAAATAATAATGGC
AATCCTGCACTGAATGTCATTGGTGCGATTGTAAGAACTAAAAGAAAGATTCAAAACCGA
AAGAAGAAAGGCGATGGAAAAAAACAAAATCAGAAGCACAAAAAGACTCATTGTCGACAC
AATGGCGAAAGCAAGTGTTGTAGGCATGAATGGACAATTGATTTCAAGGAACTTGGCGGC
TATGACTACATTATTTCACCGCGTCATTTTGATGCGGGTTATTGCGACGGAATGTGTCCA
TTTAGACATAATATGGGCAGCAATCATGCATACTTCCAATCACTCGCACACCATCAGTTA
AAGAAAGAAAATGTGCCGAATGTCTGTTGTGCTCCAACAAAGTTACAGGATCTTGAAGTG
CTGCATATCGATGAAAATGATCATACAAAATTGAAAGTGACGACAATGAAAAAAATGATG
GCCATGAAGTGTTCTTGCACATGA
>g496.t1 Gene=g496 Length=447
MIQRHNSNIQNNSSNNSSNFNIINATELEQHIMNGLNMKRKPDANLASISQEEFFTKYNE
YLSKVNYRIKRSAKLYGDDITNIVFDDDNEFKKIFAFKHSNQSNVLGSQRKRRSTREEDI
TSLAFEIEDKSDLPTVIEQATLSIFLTNDYDHATSTHPPATETESHLEYDDSSSSGSDLS
PKKLTIKPNSKSHHLRHHNHHHRNKIHINKNSQAILKLHVYQTNSHEGRTFLFTKDLTIS
PNSDDTHIAFSKWIQLDLTSVVRTWLQGNEKTFNIDIYCEMCSKYGISIINEGTSQNNNG
NPALNVIGAIVRTKRKIQNRKKKGDGKKQNQKHKKTHCRHNGESKCCRHEWTIDFKELGG
YDYIISPRHFDAGYCDGMCPFRHNMGSNHAYFQSLAHHQLKKENVPNVCCAPTKLQDLEV
LHIDENDHTKLKVTTMKKMMAMKCSCT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g496.t1 | CDD | cd13755 | TGF_beta_maverick | 345 | 446 | 1.40732E-47 |
| 6 | g496.t1 | Gene3D | G3DSA:2.60.120.970 | - | 178 | 308 | 3.6E-5 |
| 5 | g496.t1 | Gene3D | G3DSA:2.10.90.10 | - | 333 | 447 | 3.3E-28 |
| 10 | g496.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 155 | 183 | - |
| 2 | g496.t1 | PANTHER | PTHR11848:SF245 | MAVERICK | 196 | 446 | 6.0E-50 |
| 3 | g496.t1 | PANTHER | PTHR11848 | TGF-BETA FAMILY | 196 | 446 | 6.0E-50 |
| 1 | g496.t1 | Pfam | PF00019 | Transforming growth factor beta like domain | 345 | 446 | 2.1E-24 |
| 8 | g496.t1 | ProSitePatterns | PS00250 | TGF-beta family signature. | 364 | 379 | - |
| 11 | g496.t1 | ProSiteProfiles | PS51362 | TGF-beta family profile. | 332 | 447 | 29.84 |
| 9 | g496.t1 | SMART | SM00204 | TGFB_2 | 346 | 447 | 2.2E-22 |
| 4 | g496.t1 | SUPERFAMILY | SSF57501 | Cystine-knot cytokines | 335 | 446 | 1.33E-25 |
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:0008083 | growth factor activity | MF |
KEGG
Orthology
- This transcript has been annotated with K04384 (transforming growth factor beta, invertebrate)
Pathway
This gene does not belong to any 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.
