General information for g12881.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Cathepsin L.
Parent gene
- The parent gene g12881 is located on chr_1: 26692194..26693562 (- 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 | g12881 | g12881.t1 | isoform | g12881.t1 | 26692194 | 26693562 |
| chr_1 | g12881 | g12881.t1 | exon | g12881.t1.exon1 | 26692194 | 26692300 |
| chr_1 | g12881 | g12881.t1 | cds | g12881.t1.CDS1 | 26692194 | 26692300 |
| chr_1 | g12881 | g12881.t1 | exon | g12881.t1.exon2 | 26692357 | 26692449 |
| chr_1 | g12881 | g12881.t1 | cds | g12881.t1.CDS2 | 26692357 | 26692449 |
| chr_1 | g12881 | g12881.t1 | exon | g12881.t1.exon3 | 26692502 | 26692663 |
| chr_1 | g12881 | g12881.t1 | cds | g12881.t1.CDS3 | 26692502 | 26692663 |
| chr_1 | g12881 | g12881.t1 | exon | g12881.t1.exon4 | 26692717 | 26692983 |
| chr_1 | g12881 | g12881.t1 | cds | g12881.t1.CDS4 | 26692717 | 26692983 |
| chr_1 | g12881 | g12881.t1 | exon | g12881.t1.exon5 | 26693037 | 26693355 |
| chr_1 | g12881 | g12881.t1 | cds | g12881.t1.CDS5 | 26693037 | 26693355 |
| chr_1 | g12881 | g12881.t1 | exon | g12881.t1.exon6 | 26693407 | 26693562 |
| chr_1 | g12881 | g12881.t1 | cds | g12881.t1.CDS6 | 26693407 | 26693562 |
| chr_1 | g12881 | g12881.t1 | TSS | g12881.t1 | NA | NA |
| chr_1 | g12881 | g12881.t1 | TTS | g12881.t1 | NA | NA |
Sequences
>g12881.t1 Gene=g12881 Length=1104
ATGATTTTGGCTGTTGATAACACAGTTAAAACAACAACTAAAACAAAATCTAAAACAGCA
AAAGCAATAAAAACTACCACAAAACAAATAAAAACTACCACCACAAAGAAAATGGTTAAA
TCTCAATCTATGGATGAAAAATTTGAAGAATATAAAAAAAAATATAACAAGAGTTATCAG
ACACGTGAAGAAGAACAACAGGCAAAAGCAAATTATATTCAATCTGAAAAAGCTAAAGAA
GCTCATAATCAACGTAAAAATGAAACTTATAAGCAAAGCACAACGGAACATTCTGATAAA
TCGTACGAGTGGAAGGTTAAAAATAGAATGGGTGCGAAAAAATCTGCTAATTCTCGAGCT
AGTAAAGCATCAAGTAAATTGCCAAATTCATTATCAACAAGAATGGGTGAAGATGTGCCA
GATTCTGTTGATTGGTCACCTTGGTGCTCTCCAATAAAAGATCAAAGTGATTGTGGTTCT
TGTTGGGCTTTCGCTAGTGTTGCTGTGTTGGAATATCTTATGAATGTTATTAGAGGTGAA
ATAATAACACTTTCTGAGCAAAGTTTAGTTGATTGTGATAATAGTTCATCAGCATGTGGT
GGAGGATGGCCCACGTATGCTTTTGACCATATCATCAGTAAAGGAATTGTTTCTAATAAA
GATTATCAATATCTTGCATTTCAATCTGAGTGTATAGAACATTATTTCGATCCTGTGCTT
TATATTGACGATACTTATGAACTTGAAGTAAAAGGTGATGAAGAATATTTAAAATATTTA
GTGGCAACGTATGGACCAATTGTTGTTGTGATTTATGCTACTGATGGTTTAGTACAATAT
CAAAACGGAGTTTATTATGAAACCTCTTGTCCAAATGATATGAATTCATATAATCATGCT
ATTGTTGTTGTTGGTTATGGAACTGATAACACAACTATTCCACCTATGGATTATTGGCTT
ATTCGTAACAGCTGGAGTACATCTTGGGGTTTGAATGGATACGGTAAATTTGCAAGGAAC
CAACAAAATCTTTGTGGAATTGCAAATTATGCTATGTTGCCTTCTAGCAAGTGGATTTCT
GCAAAGACAAGACCTAGTACATAG
>g12881.t1 Gene=g12881 Length=367
MILAVDNTVKTTTKTKSKTAKAIKTTTKQIKTTTTKKMVKSQSMDEKFEEYKKKYNKSYQ
TREEEQQAKANYIQSEKAKEAHNQRKNETYKQSTTEHSDKSYEWKVKNRMGAKKSANSRA
SKASSKLPNSLSTRMGEDVPDSVDWSPWCSPIKDQSDCGSCWAFASVAVLEYLMNVIRGE
IITLSEQSLVDCDNSSSACGGGWPTYAFDHIISKGIVSNKDYQYLAFQSECIEHYFDPVL
YIDDTYELEVKGDEEYLKYLVATYGPIVVVIYATDGLVQYQNGVYYETSCPNDMNSYNHA
IVVVGYGTDNTTIPPMDYWLIRNSWSTSWGLNGYGKFARNQQNLCGIANYAMLPSSKWIS
AKTRPST
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g12881.t1 | CDD | cd02248 | Peptidase_C1A | 140 | 354 | 1.80578E-76 |
| 9 | g12881.t1 | Gene3D | G3DSA:3.90.70.10 | Cysteine proteinases | 28 | 356 | 2.0E-82 |
| 15 | g12881.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 76 | 136 | - |
| 16 | g12881.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 76 | 110 | - |
| 14 | g12881.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 114 | 136 | - |
| 2 | g12881.t1 | PANTHER | PTHR12411 | CYSTEINE PROTEASE FAMILY C1-RELATED | 35 | 351 | 4.7E-56 |
| 3 | g12881.t1 | PANTHER | PTHR12411:SF57 | CATHEPSIN L1 | 35 | 351 | 4.7E-56 |
| 4 | g12881.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 155 | 170 | 2.3E-9 |
| 5 | g12881.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 299 | 309 | 2.3E-9 |
| 6 | g12881.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 318 | 324 | 2.3E-9 |
| 1 | g12881.t1 | Pfam | PF00112 | Papain family cysteine protease | 139 | 354 | 8.7E-60 |
| 12 | g12881.t1 | ProSitePatterns | PS00139 | Eukaryotic thiol (cysteine) proteases cysteine active site. | 155 | 166 | - |
| 11 | g12881.t1 | ProSitePatterns | PS00640 | Eukaryotic thiol (cysteine) proteases asparagine active site. | 318 | 337 | - |
| 13 | g12881.t1 | SMART | SM00645 | pept_c1 | 139 | 355 | 3.4E-67 |
| 7 | g12881.t1 | SUPERFAMILY | SSF54001 | Cysteine proteinases | 40 | 354 | 8.52E-84 |
| 8 | g12881.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 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: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