General information for g5982.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Cathepsin S.
Parent gene
- The parent gene g5982 is located on chr_2: 13162513..13163608 (- 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 | g5982 | g5982.t2 | isoform | g5982.t2 | 13161941 | 13163442 |
| chr_2 | g5982 | g5982.t2 | exon | g5982.t2.exon1 | 13161941 | 13163442 |
| chr_2 | g5982 | g5982.t2 | cds | g5982.t2.CDS1 | 13162513 | 13163325 |
| chr_2 | g5982 | g5982.t2 | TSS | g5982.t2 | NA | NA |
| chr_2 | g5982 | g5982.t2 | TTS | g5982.t2 | NA | NA |
Sequences
>g5982.t2 Gene=g5982 Length=1502
AATGACTTCAACAAGTCTTATCATTCAAAGCAAGAATATGGTGTGCGGAAGGAAATATTT
TTAAAAAATCTAAACGCTATTAATAAACACAATGGCAATAATAGTGAAACATATAAAATG
TCTATTAATCAATTTACTGATATGACGTTTAAAGAACTTTACGATCTAAACTATCCAGAT
GAAGGCGAATCCTCTTCTAAAATGGACACTACAAAATACACATCACCTGAGACTGAAAAT
TTATTGAGTGACTCATTTGAGGAAAATGTTCCTGATTCTTTTGATTGGAGAAATTTTGAT
GTAATTTCAAACATAAAAGATCAAAAATTGTGTGGCAGTTGTTTTATTTATGCAGTTCTT
GAAGAAATTGAAAGTCAAATTAAAATTAAAACAAATCAATCTTATGAATTTTCACGTCAA
GAAATTCTCGATTGTGCTAGAAAAGGATATGGATCGCTTGGATGTAGTGGTGGTTCACTG
TATGGTGTTCATTCTTATATTAAAAATAGAGGTGGAATTTCTGAAGAAAAATTTTATCCT
TATGAAGCAAAAGAAAATTTGTGTCGTAGTGAAAAATTTCCAAAAATTGACATCGATCTC
AAAGGCATAAAAATATTTGACACAGAAGATGAAGACATTCTGAAAAGAGCTTTATATACT
TTAGGACCAATAACTGTAATAATTGATAATCTTCATGACTCATTCTTTCGTTATTCAAGT
GGAATTTATTATGAGCAAGAATGCAATGAATCTGATGCATATTCTCATGCAGTTGTGATA
ATTGGTTATGGAAGTTCAAATGGTAAAGATTATTGGACAATTAAAAATTCTTATGGAGAA
AAATGGGGAGAAAAAGGATATATGAGAATTGCAAGAAATCAAAATAATCACTGCAAAATA
TCATCATTTAATATGGTCACAAAATTATAAATTAAATCATAAAATTTTTTTACACCATCG
TCATATACATATAGTTTTTATAGCTTCCTTTGTGTAAAATTATATGATAATAAAATTACG
TATTACAGTCAATTAAATGTGTGATGAAATGGAAAAATTGTGACATTAAATCGTTGGAGG
CATGTCTCTCTCTCTTTCTTTTTCTAAAGTGTCTGCGTTTCACTTAATCATACAGTAATA
CTTAGAAATATATTTATAATATACTCATTTAATATGCCATAGTAAAAATATCTCTCATAT
ATTTTATAATAATCTTTTGCTTTCAATTGTGGACACTCGAAAAAAAAAGTCTCAAAAGTG
TAAAACTTTTATTTATAAGGATGATTTATTGTATAAAACGAAGAAATATATTATAAATTT
TCTTATTTTATCTATTTTAGGAATTATTTAAAGTTTTAATTTGTATTTTTATGAATTTTA
GCAAAAATTTTAAAATTCAATGTTTACATTTTGATTTGATATTTTAAAATTTTAAATATT
TCTTTAAAATTGATTAAATTCACTATTAAATCTATTTAAATAGTAAGTATTTATTAAATA
AA
>g5982.t2 Gene=g5982 Length=270
MSINQFTDMTFKELYDLNYPDEGESSSKMDTTKYTSPETENLLSDSFEENVPDSFDWRNF
DVISNIKDQKLCGSCFIYAVLEEIESQIKIKTNQSYEFSRQEILDCARKGYGSLGCSGGS
LYGVHSYIKNRGGISEEKFYPYEAKENLCRSEKFPKIDIDLKGIKIFDTEDEDILKRALY
TLGPITVIIDNLHDSFFRYSSGIYYEQECNESDAYSHAVVIIGYGSSNGKDYWTIKNSYG
EKWGEKGYMRIARNQNNHCKISSFNMVTKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g5982.t2 | CDD | cd02248 | Peptidase_C1A | 52 | 264 | 0.0e+00 |
| 9 | g5982.t2 | Gene3D | G3DSA:3.90.70.10 | Cysteine proteinases | 1 | 268 | 0.0e+00 |
| 2 | g5982.t2 | PANTHER | PTHR12411 | CYSTEINE PROTEASE FAMILY C1-RELATED | 2 | 267 | 0.0e+00 |
| 3 | g5982.t2 | PANTHER | PTHR12411:SF734 | CATHEPSIN S, ORTHOLOG 1 | 2 | 267 | 0.0e+00 |
| 6 | g5982.t2 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 69 | 84 | 1.7e-05 |
| 4 | g5982.t2 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 217 | 227 | 1.7e-05 |
| 5 | g5982.t2 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 232 | 238 | 1.7e-05 |
| 1 | g5982.t2 | Pfam | PF00112 | Papain family cysteine protease | 51 | 266 | 0.0e+00 |
| 8 | g5982.t2 | SMART | SM00645 | pept_c1 | 51 | 269 | 0.0e+00 |
| 7 | g5982.t2 | SUPERFAMILY | SSF54001 | Cysteine proteinases | 1 | 264 | 0.0e+00 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5982/g5982.t2; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5982.t2.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0008234 | cysteine-type peptidase activity | MF |
| GO:0006508 | proteolysis | BP |
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. There were no conditions that were differentially expressed