General information for g12897.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Cathepsin K.
Parent gene
- The parent gene g12897 is located on chr_1: 26773493..26775756 (- 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 | g12897 | g12897.t1 | TTS | g12897.t1 | 26773361 | 26773361 |
| chr_1 | g12897 | g12897.t1 | isoform | g12897.t1 | 26773493 | 26775756 |
| chr_1 | g12897 | g12897.t1 | exon | g12897.t1.exon1 | 26773493 | 26773562 |
| chr_1 | g12897 | g12897.t1 | cds | g12897.t1.CDS1 | 26773493 | 26773562 |
| chr_1 | g12897 | g12897.t1 | exon | g12897.t1.exon2 | 26774280 | 26774331 |
| chr_1 | g12897 | g12897.t1 | cds | g12897.t1.CDS2 | 26774280 | 26774331 |
| chr_1 | g12897 | g12897.t1 | exon | g12897.t1.exon3 | 26774385 | 26774418 |
| chr_1 | g12897 | g12897.t1 | cds | g12897.t1.CDS3 | 26774385 | 26774418 |
| chr_1 | g12897 | g12897.t1 | exon | g12897.t1.exon4 | 26774477 | 26774757 |
| chr_1 | g12897 | g12897.t1 | cds | g12897.t1.CDS4 | 26774477 | 26774757 |
| chr_1 | g12897 | g12897.t1 | exon | g12897.t1.exon5 | 26774833 | 26774843 |
| chr_1 | g12897 | g12897.t1 | cds | g12897.t1.CDS5 | 26774833 | 26774843 |
| chr_1 | g12897 | g12897.t1 | exon | g12897.t1.exon6 | 26774898 | 26775541 |
| chr_1 | g12897 | g12897.t1 | cds | g12897.t1.CDS6 | 26774898 | 26775541 |
| chr_1 | g12897 | g12897.t1 | exon | g12897.t1.exon7 | 26775610 | 26775756 |
| chr_1 | g12897 | g12897.t1 | cds | g12897.t1.CDS7 | 26775610 | 26775756 |
| chr_1 | g12897 | g12897.t1 | TSS | g12897.t1 | NA | NA |
Sequences
>g12897.t1 Gene=g12897 Length=1239
ATGGAGAAAGTACATTTAATTACAATTTCTTTACTTTTAATAGCAAGTTTTTATTCAATT
GTTCAAAGTATAGATGCAAGTGTGACAAAGTCACATAAATGTTTAAACATAACAGATGCA
GAACGTGAAAAATTTTATGAATGGAAGGAAGAGAAAAATAAAACTTATAAAACACCTGAA
GCAGAAGAAAAAGCATTGAAAAATTTTGTAAAAGCATTGAGAAAAATTGAAAGTTTCAAT
AATCAAATGAATAAAACATATTCACAAAGTTATGATCCAGAATTTATTGATAAAGATCCA
GAAAAATTCATTCGAGAGCAAGCTGGTTTTAAAATTCCTAAAAATGTTAAATTCAGTACA
TTGCCAAATGATGATGATGATGGCAGCAATAGTGGTGTTGAGTATGATGCATCAACTACT
GAACTTACTTCATCAACTACTAAACAGAAAATTGTTAAATCTGCTCAATTGAAAGATCCT
AAAACAACTAAAATTACGACTTTAAAAACAACAACATTTAAAACTACAACTTCAAGAAGA
AAGCCGTCAACAATTCAAAATGCTAGGACAACACCAAAAATTACAACTACAAAGGCACCA
AAACTGCCGACTTCTGTAAATTATACAAAGTACATGCAAAGTGTGATGGAACAAGGACAA
TGCGGATCGTGCTATATAATTTCATCAGTTGCTTTAGTTGAATATGATAGTAAAGTTAAC
AGAAATATCAATCAAACTTTATCATCACAAAATGTTCTTGATTGCATCAATGATGATGAT
CCATGTTCAGGTGGTTGGCCAGGTGTTGCTTTAGATTTTGTAAAATACAATGGAGTTGCT
GATGGAAGTAAAGGAAAATATGTCTATACCGGAATTCCTCAAAGTTGTAATAAAACTTTT
ACTCCACTTCGAAATATTTCAAATTGGTGTTCATATTTTCTAAGTGGAAATGAATATGAA
CTACAAAAACTTGTAGCAAAACAACCAGTTGTCGTTGGAGTTTCTTTGACCTTTAATATG
ATGTATTACAAAAAGGGAGTTTTTTATGATGAAGCATGTACTAATAATATTGATCATGCT
GTGGTTGTTGTCGGATATGGAACGGATGGTGCAAATGGTGATTATTGGATTATAAGAAAT
TCATGGGGGATAAACTGGGGAGTGAAAGGATATGGATTATTCAGCAGAAATCGAAATAAT
TCTTGTGGTATTGCAAATGTCGCTTTCACGCTTTGTTAA
>g12897.t1 Gene=g12897 Length=412
MEKVHLITISLLLIASFYSIVQSIDASVTKSHKCLNITDAEREKFYEWKEEKNKTYKTPE
AEEKALKNFVKALRKIESFNNQMNKTYSQSYDPEFIDKDPEKFIREQAGFKIPKNVKFST
LPNDDDDGSNSGVEYDASTTELTSSTTKQKIVKSAQLKDPKTTKITTLKTTTFKTTTSRR
KPSTIQNARTTPKITTTKAPKLPTSVNYTKYMQSVMEQGQCGSCYIISSVALVEYDSKVN
RNINQTLSSQNVLDCINDDDPCSGGWPGVALDFVKYNGVADGSKGKYVYTGIPQSCNKTF
TPLRNISNWCSYFLSGNEYELQKLVAKQPVVVGVSLTFNMMYYKKGVFYDEACTNNIDHA
VVVVGYGTDGANGDYWIIRNSWGINWGVKGYGLFSRNRNNSCGIANVAFTLC
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g12897.t1 | CDD | cd02248 | Peptidase_C1A | 203 | 409 | 8.67671E-59 |
| 2 | g12897.t1 | PANTHER | PTHR12411 | CYSTEINE PROTEASE FAMILY C1-RELATED | 41 | 406 | 6.7E-40 |
| 3 | g12897.t1 | PANTHER | PTHR12411:SF570 | CATHEPSIN L 1 | 41 | 406 | 6.7E-40 |
| 5 | g12897.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 218 | 233 | 1.1E-7 |
| 6 | g12897.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 359 | 369 | 1.1E-7 |
| 4 | g12897.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 375 | 381 | 1.1E-7 |
| 1 | g12897.t1 | Pfam | PF00112 | Papain family cysteine protease | 203 | 409 | 3.9E-48 |
| 10 | g12897.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 26 | - |
| 11 | g12897.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 5 | - |
| 12 | g12897.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 6 | 17 | - |
| 13 | g12897.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 18 | 26 | - |
| 9 | g12897.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 27 | 412 | - |
| 17 | g12897.t1 | ProSitePatterns | PS00139 | Eukaryotic thiol (cysteine) proteases cysteine active site. | 218 | 229 | - |
| 16 | g12897.t1 | ProSitePatterns | PS00639 | Eukaryotic thiol (cysteine) proteases histidine active site. | 357 | 367 | - |
| 15 | g12897.t1 | ProSitePatterns | PS00640 | Eukaryotic thiol (cysteine) proteases asparagine active site. | 375 | 394 | - |
| 18 | g12897.t1 | SMART | SM00645 | pept_c1 | 202 | 412 | 6.1E-44 |
| 7 | g12897.t1 | SUPERFAMILY | SSF54001 | Cysteine proteinases | 42 | 409 | 1.02E-61 |
| 8 | g12897.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 23 | - |
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