General information for g12758.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cathepsin K.
Parent gene
- The parent gene g12758 is located on chr_1: 25811296..25814505 (- 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 | g12758 | g12758.t1 | isoform | g12758.t1 | 25811296 | 25814505 |
| chr_1 | g12758 | g12758.t1 | exon | g12758.t1.exon1 | 25811296 | 25811392 |
| chr_1 | g12758 | g12758.t1 | cds | g12758.t1.CDS1 | 25811296 | 25811392 |
| chr_1 | g12758 | g12758.t1 | exon | g12758.t1.exon2 | 25811455 | 25811472 |
| chr_1 | g12758 | g12758.t1 | cds | g12758.t1.CDS2 | 25811455 | 25811472 |
| chr_1 | g12758 | g12758.t1 | exon | g12758.t1.exon3 | 25811586 | 25811736 |
| chr_1 | g12758 | g12758.t1 | cds | g12758.t1.CDS3 | 25811586 | 25811736 |
| chr_1 | g12758 | g12758.t1 | exon | g12758.t1.exon4 | 25811795 | 25812001 |
| chr_1 | g12758 | g12758.t1 | cds | g12758.t1.CDS4 | 25811795 | 25812001 |
| chr_1 | g12758 | g12758.t1 | exon | g12758.t1.exon5 | 25812087 | 25812172 |
| chr_1 | g12758 | g12758.t1 | cds | g12758.t1.CDS5 | 25812087 | 25812172 |
| chr_1 | g12758 | g12758.t1 | exon | g12758.t1.exon6 | 25812239 | 25812272 |
| chr_1 | g12758 | g12758.t1 | cds | g12758.t1.CDS6 | 25812239 | 25812272 |
| chr_1 | g12758 | g12758.t1 | exon | g12758.t1.exon7 | 25812384 | 25812903 |
| chr_1 | g12758 | g12758.t1 | cds | g12758.t1.CDS7 | 25812384 | 25812903 |
| chr_1 | g12758 | g12758.t1 | exon | g12758.t1.exon8 | 25812965 | 25813468 |
| chr_1 | g12758 | g12758.t1 | cds | g12758.t1.CDS8 | 25812965 | 25813468 |
| chr_1 | g12758 | g12758.t1 | exon | g12758.t1.exon9 | 25813526 | 25813660 |
| chr_1 | g12758 | g12758.t1 | cds | g12758.t1.CDS9 | 25813526 | 25813660 |
| chr_1 | g12758 | g12758.t1 | exon | g12758.t1.exon10 | 25814503 | 25814505 |
| chr_1 | g12758 | g12758.t1 | cds | g12758.t1.CDS10 | 25814503 | 25814505 |
| chr_1 | g12758 | g12758.t1 | TSS | g12758.t1 | 25814666 | 25814666 |
| chr_1 | g12758 | g12758.t1 | TTS | g12758.t1 | NA | NA |
Sequences
>g12758.t1 Gene=g12758 Length=1755
ATGAGACAAATTGTTATTATTGGATTTGCGTTAATCGCTAGTGCATCATGTCAGATCTAT
ACAAAGATACAATCGGATGGTTATCATTATAACAAACCAGCACCTGAAGTGAGTTTTAAA
ACTCCAGAAAAAAATCAGTGTTCAAATGGAGCTCAAAATCCTCCATATTGCTGCCTTAAT
GGCGCTGACAATGAGTACTGTCAGCTTCCACAACCTTTTCAACCAGCTCCTCAACCAGTC
GAACCTGAACAAGCTTTTACTCTTCCACCACTGCCATCATTTATTCCTCAAATTAATTTA
CCAAAAGTGATCCCAGTTGATCGTCCTTTGCCTGTTAACCCTGATGTTTCTAATATTGAC
ATAAGAACTAACGCAGTTGTTGATCAATCAGCCAAACCTCAACCAGATATCACTCTTCCA
CCACTGCCATCATTTATTCCTCAAATAAATTTGCCAAAAGTAATCCCTGTTGATCGTCCT
TTGCCTGTTAAGCCTGATGTTCAACCAGTCGTTGATCAACCAGCTCCATTTGCTCCACCT
CAATCACAACCAAGAGTTGAAATTCCAGCAAAACCTAAATTGACCAACAATGAATATCTC
CCACCATTAGCCGATGAATCATCAGAATGGGAAGCATGGAAGAGAAAATATAATAAGAAT
TATGATACACCAGAAGAAGAAGAACGTCGTCGACTTATTTTTGAAGCAAATGTTGATAAA
ATTAAAAGACATAATAAAGATTTTGCTGCAGGATCGGTATCTTTTGATCTTGAAATTAAT
AAATTTGCTGATATGGAGAAGGATGAATTTATTAGATTTAATACTGGAATCAGACGTAAA
GGTCGATCTGCAGCGCAATCGCCAACAAGATTCTATGGTGCTCCTTACCCATCATCAGCA
CGGGCAGGATTTAATGCTGAATTAGGCTTTGATCAAGATGGATTTGGTAGTGGACGATCA
TCTGATTCCGCGTCTGGTAGATTTGGTGGATCGAGTGATTTTGGTGGTTCATCAAGTGAT
GGTTTTGGATCCAGTTCATCAGCAGAGCAACAAGGTCGAAATATGATGAACGTTTTCATG
CCATCATCATCACTTGCGTCCGAAGTTAAAGAAGAAGTCGATTGGAGAAAGGAAGGTGCA
ATCACTCCTGTGAAGAATCAAGGAAAATGTGCTTCATGCTGGGCATTTAGTGCGAATGGT
GCTTTAGAAGCTCACAATTTCCTTAGAAAACGCACGGGTCCAATACCATTGAGTGAACAA
AATTTAATTGATTGCGTCACAGAAAATGATGGATGTGATGGAGGTTATATGACTAATGCT
TACGAATATGTAGCAAGAAATCCGGGTGTCGATACTGAAGCTTCATATCCTTATGAACAG
AGAAACAGCACGTGTCGTTTCAAACGTGAGAATGTTGGTGGTGAATGCATGACACATATG
GAAATTCAAATTGGAAATGAAGAAGCACTTAAACAAGCTGTCGCTACTGTTGGTCCAGTC
GCTGCAGGAATTGATGGTGGTCAACATTCATTCCAATTCTATAAATCAGGATTTTATTAT
GAACCAAAATGTGATCAAGACGTGAATCACGCTGTCTTAATTGTAGGCTATGGAAAGACA
GAAACAGGCGAAGAATATTGGATTTGCAAAAACTCATGGGATACGGATTGGGGTGAAGAA
GGCTATGTCAGAATGGCCAAGAATAGAAACAATCATTGTGGAATCACTAACTTGGCAAGC
TATCCAATTGTCTAA
>g12758.t1 Gene=g12758 Length=584
MRQIVIIGFALIASASCQIYTKIQSDGYHYNKPAPEVSFKTPEKNQCSNGAQNPPYCCLN
GADNEYCQLPQPFQPAPQPVEPEQAFTLPPLPSFIPQINLPKVIPVDRPLPVNPDVSNID
IRTNAVVDQSAKPQPDITLPPLPSFIPQINLPKVIPVDRPLPVKPDVQPVVDQPAPFAPP
QSQPRVEIPAKPKLTNNEYLPPLADESSEWEAWKRKYNKNYDTPEEEERRRLIFEANVDK
IKRHNKDFAAGSVSFDLEINKFADMEKDEFIRFNTGIRRKGRSAAQSPTRFYGAPYPSSA
RAGFNAELGFDQDGFGSGRSSDSASGRFGGSSDFGGSSSDGFGSSSSAEQQGRNMMNVFM
PSSSLASEVKEEVDWRKEGAITPVKNQGKCASCWAFSANGALEAHNFLRKRTGPIPLSEQ
NLIDCVTENDGCDGGYMTNAYEYVARNPGVDTEASYPYEQRNSTCRFKRENVGGECMTHM
EIQIGNEEALKQAVATVGPVAAGIDGGQHSFQFYKSGFYYEPKCDQDVNHAVLIVGYGKT
ETGEEYWICKNSWDTDWGEEGYVRMAKNRNNHCGITNLASYPIV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g12758.t1 | CDD | cd02248 | Peptidase_C1A | 371 | 582 | 1.08822E-103 |
| 3 | g12758.t1 | PANTHER | PTHR12411 | CYSTEINE PROTEASE FAMILY C1-RELATED | 207 | 285 | 5.6E-92 |
| 5 | g12758.t1 | PANTHER | PTHR12411:SF57 | CATHEPSIN L1 | 207 | 285 | 5.6E-92 |
| 4 | g12758.t1 | PANTHER | PTHR12411 | CYSTEINE PROTEASE FAMILY C1-RELATED | 333 | 580 | 5.6E-92 |
| 6 | g12758.t1 | PANTHER | PTHR12411:SF57 | CATHEPSIN L1 | 333 | 580 | 5.6E-92 |
| 7 | g12758.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 387 | 402 | 1.4E-8 |
| 9 | g12758.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 530 | 540 | 1.4E-8 |
| 8 | g12758.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 546 | 552 | 1.4E-8 |
| 1 | g12758.t1 | Pfam | PF08246 | Cathepsin propeptide inhibitor domain (I29) | 210 | 270 | 2.0E-15 |
| 2 | g12758.t1 | Pfam | PF00112 | Papain family cysteine protease | 371 | 583 | 3.5E-75 |
| 13 | g12758.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 17 | - |
| 14 | g12758.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 15 | g12758.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 12 | - |
| 16 | g12758.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 13 | 17 | - |
| 12 | g12758.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 18 | 584 | - |
| 19 | g12758.t1 | ProSitePatterns | PS00639 | Eukaryotic thiol (cysteine) proteases histidine active site. | 528 | 538 | - |
| 18 | g12758.t1 | ProSitePatterns | PS00640 | Eukaryotic thiol (cysteine) proteases asparagine active site. | 546 | 565 | - |
| 22 | g12758.t1 | ProSiteProfiles | PS51257 | Prokaryotic membrane lipoprotein lipid attachment site profile. | 1 | 17 | 5.0 |
| 21 | g12758.t1 | SMART | SM00848 | Inhibitor_I29_2 | 210 | 270 | 8.7E-26 |
| 20 | g12758.t1 | SMART | SM00645 | pept_c1 | 369 | 583 | 1.8E-106 |
| 10 | g12758.t1 | SUPERFAMILY | SSF54001 | Cysteine proteinases | 208 | 584 | 2.61E-101 |
| 11 | g12758.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 17 | - |
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 transcript has been annotated with K08570 (histolysain)
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.
