General information for g5981.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cathepsin L.
Parent gene
- The parent gene g5981 is located on chr_2: 13160413..13161578 (- 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 | g5981 | g5981.t1 | TTS | g5981.t1 | 13160303 | 13160303 |
| chr_2 | g5981 | g5981.t1 | isoform | g5981.t1 | 13160413 | 13161578 |
| chr_2 | g5981 | g5981.t1 | exon | g5981.t1.exon1 | 13160413 | 13161348 |
| chr_2 | g5981 | g5981.t1 | cds | g5981.t1.CDS1 | 13160413 | 13161348 |
| chr_2 | g5981 | g5981.t1 | exon | g5981.t1.exon2 | 13161489 | 13161578 |
| chr_2 | g5981 | g5981.t1 | cds | g5981.t1.CDS2 | 13161489 | 13161578 |
| chr_2 | g5981 | g5981.t1 | TSS | g5981.t1 | 13161676 | 13161676 |
Sequences
>g5981.t1 Gene=g5981 Length=1026
ATGTACCTTGGTATTTTAGTCTTATTCACAAATTTAATAAACAGTTACATTGATAATCAT
GAATCAATAGAATTGTGGATGAAATTTAAAGTTGACTACAACAGAAGCTATGAGACAACA
AGAGAGGAAGAAATACGTAAAGAAATTTTCATGGATAATTTAAGAAAAATGTTGTCACAT
AATCTCAAGCAATCTGCTGGCCTATATTCATTTAAATTTGGTATTAATCAGTTTTCAGAC
ATGACGTTTGAAGAATTTCTCAAAATAAACACAGAACCTGGAAGTCGAGACAAATCATTA
GAGCAAAATTTTAATGCAATTGTCATTCATGATCTTACAAGTGATCCAAGTAATTATACA
TCATTCGATTGGCGTGATCATGGTGCAGTGACGAGTATTAAAAATCAAGGATATAAATGT
GGATCATGTTATGCATTTGCATCAATTGCAGCTATAGAATCTCATATATTTTTGAAAACA
GGAAAACTTCTTGATTTATCAGAGCAAGAAATTGTTGATTGTGCACAAGGTTATTTTACA
GCTGGCTGTTATGGTGGTTATGAAATTGGAGCACTTAATTATATACAAAATAATGGTGAT
ATAACTTTTGAAGAATCATATCCTTATAAAGGAATACAAGAAAAATGTTTACGAAGTGTC
AATGGCACAGATCTTTCAAAAATTAAAATTACAATCAAACAAATTTCACAACCGCCAAGA
GAAAATGAAGAAGAATTGAAAAATGCACTTGTTAAATATGGACCAATTATAATTTCAATA
GATCATTTACATGAGAGTTTTATGAGATATTCAAGTGGAGTTTATCATGAAAGTGACTGT
AAAAAACAATTTTCTCATGCTGCACTTTTGGTCGGTTATGGAAGTGAAAATGGCAAAGAT
TATTGGTTAGTGAAAAACTCGTTTGGAACAACATGGGGTGAAAATGGATATTTTAGGATA
GCAAGGAATCGAAAAAATAATTGTGAAATTGCTACAGAACCGGTGATAATTAGCAGTGAA
GATTAA
>g5981.t1 Gene=g5981 Length=341
MYLGILVLFTNLINSYIDNHESIELWMKFKVDYNRSYETTREEEIRKEIFMDNLRKMLSH
NLKQSAGLYSFKFGINQFSDMTFEEFLKINTEPGSRDKSLEQNFNAIVIHDLTSDPSNYT
SFDWRDHGAVTSIKNQGYKCGSCYAFASIAAIESHIFLKTGKLLDLSEQEIVDCAQGYFT
AGCYGGYEIGALNYIQNNGDITFEESYPYKGIQEKCLRSVNGTDLSKIKITIKQISQPPR
ENEEELKNALVKYGPIIISIDHLHESFMRYSSGVYHESDCKKQFSHAALLVGYGSENGKD
YWLVKNSFGTTWGENGYFRIARNRKNNCEIATEPVIISSED
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g5981.t1 | CDD | cd02248 | Peptidase_C1A | 120 | 337 | 2.51654E-96 |
| 9 | g5981.t1 | Gene3D | G3DSA:3.90.70.10 | Cysteine proteinases | 16 | 337 | 1.6E-99 |
| 3 | g5981.t1 | PANTHER | PTHR12411 | CYSTEINE PROTEASE FAMILY C1-RELATED | 20 | 333 | 8.5E-79 |
| 4 | g5981.t1 | PANTHER | PTHR12411:SF57 | CATHEPSIN L1 | 20 | 333 | 8.5E-79 |
| 7 | g5981.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 137 | 152 | 8.6E-7 |
| 6 | g5981.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 286 | 296 | 8.6E-7 |
| 5 | g5981.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 301 | 307 | 8.6E-7 |
| 1 | g5981.t1 | Pfam | PF08246 | Cathepsin propeptide inhibitor domain (I29) | 27 | 86 | 4.1E-13 |
| 2 | g5981.t1 | Pfam | PF00112 | Papain family cysteine protease | 120 | 335 | 9.6E-70 |
| 11 | g5981.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 15 | - |
| 12 | g5981.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 13 | g5981.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 10 | - |
| 14 | g5981.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 11 | 15 | - |
| 10 | g5981.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 16 | 341 | - |
| 17 | g5981.t1 | SMART | SM00848 | Inhibitor_I29_2 | 26 | 86 | 3.3E-22 |
| 16 | g5981.t1 | SMART | SM00645 | pept_c1 | 118 | 338 | 3.7E-93 |
| 8 | g5981.t1 | SUPERFAMILY | SSF54001 | Cysteine proteinases | 18 | 335 | 7.12E-101 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5981/g5981.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5981.t1.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 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.
