General information for g9563.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Carboxypeptidase N subunit 2.
Parent gene
- The parent gene g9563 is located on chr_1: 4065288..4066169 (+ 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 | g9563 | g9563.t2 | isoform | g9563.t2 | 4065288 | 4066169 |
| chr_1 | g9563 | g9563.t2 | exon | g9563.t2.exon1 | 4065288 | 4066169 |
| chr_1 | g9563 | g9563.t2 | cds | g9563.t2.CDS1 | 4065288 | 4066169 |
| chr_1 | g9563 | g9563.t2 | TTS | g9563.t2 | 4066306 | 4066306 |
| chr_1 | g9563 | g9563.t2 | TSS | g9563.t2 | NA | NA |
Sequences
>g9563.t2 Gene=g9563 Length=882
ATGGAAATTCTTAATGAAGTGCGAATGAGTAACAATCAAATTAAAAATTTACCTAAAAAT
TTCTTTGTTAATGCTCCTAACTTATATTCAATTGATTTAGATGGAAATTTAATAGAAGTT
ATTGACCCAGAGTTTTATAATGGACAAACAAAAATAAGCGCGATTGATTTTTCAAAGAAT
AAAATTCGTGAAATTCCTTCAGAATTATTTAAACAACAAACTAATATTAGTCATATTGAT
TTTAGTTACAATTTAATTGAGCACTTAGATCCACAGATATTTTCATGTCTACCTTCACTT
TCTCAAGTCAACTTGAAGTTCAATCAGTTGACAGAAATTGATGAAAATTTATTCAAGAAT
AATCCAAAAATATGGAAATTGAATTTTAGGGGTAATAAAATAAAGAAAATACACCCTAAA
GCATTTGAAAATCTATCAGAACTTTACTCGCTTTCACTTGGAGATAATTGTATTGAAGAG
TTACCTCAAGGTCTCTTTAGAAATATGAAATCTTTAATGAATTTATTTCTTGAAAATAAT
AATATCAATAAGATTCATCCAGAAGTTTTCATGCCTTTTAAAGATAAAGGTATTTATCTT
AATTTAAACAACAACAAAATAGAAATTTTTGAAAAAGAAACATTTCAAAATTTGAATAAA
ATGAGAGCATTTGGTTTTCGAAACAATCCTGGTAGTGAAATGATAGATGAGCAATTTGTA
AAAATTTTTAATTGTGGAATTCAATTTCTTAAATTTAATTACTTCACTATTTTTGATCGT
TTTGATGAATACTTAAGCCAAGAACTTATAAACAAAAAAGTTAAGAATGAAGATATTTTA
AGTGAAGATGATGAAGAATATGGATTTGAAATACTTGATTGA
>g9563.t2 Gene=g9563 Length=293
MEILNEVRMSNNQIKNLPKNFFVNAPNLYSIDLDGNLIEVIDPEFYNGQTKISAIDFSKN
KIREIPSELFKQQTNISHIDFSYNLIEHLDPQIFSCLPSLSQVNLKFNQLTEIDENLFKN
NPKIWKLNFRGNKIKKIHPKAFENLSELYSLSLGDNCIEELPQGLFRNMKSLMNLFLENN
NINKIHPEVFMPFKDKGIYLNLNNNKIEIFEKETFQNLNKMRAFGFRNNPGSEMIDEQFV
KIFNCGIQFLKFNYFTIFDRFDEYLSQELINKKVKNEDILSEDDEEYGFEILD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g9563.t2 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 2 | 107 | 0.0000 |
| 18 | g9563.t2 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 108 | 251 | 0.0000 |
| 3 | g9563.t2 | PANTHER | PTHR45617:SF42 | LEUCINE RICH REPEAT CONTAINING G PROTEIN-COUPLED RECEPTOR 6 | 6 | 191 | 0.0000 |
| 5 | g9563.t2 | PANTHER | PTHR45617 | - | 6 | 191 | 0.0000 |
| 4 | g9563.t2 | PANTHER | PTHR45617:SF42 | LEUCINE RICH REPEAT CONTAINING G PROTEIN-COUPLED RECEPTOR 6 | 127 | 230 | 0.0000 |
| 6 | g9563.t2 | PANTHER | PTHR45617 | - | 127 | 230 | 0.0000 |
| 2 | g9563.t2 | Pfam | PF13306 | BspA type Leucine rich repeat region (6 copies) | 5 | 123 | 0.0000 |
| 1 | g9563.t2 | Pfam | PF13855 | Leucine rich repeat | 147 | 192 | 0.0000 |
| 19 | g9563.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 3 | 24 | 5.4560 |
| 26 | g9563.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 27 | 48 | 5.9330 |
| 22 | g9563.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 51 | 72 | 5.7710 |
| 24 | g9563.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 75 | 96 | 5.7560 |
| 23 | g9563.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 99 | 120 | 5.9560 |
| 27 | g9563.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 123 | 144 | 5.6400 |
| 20 | g9563.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 147 | 168 | 6.4180 |
| 25 | g9563.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 171 | 192 | 7.3270 |
| 21 | g9563.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 196 | 217 | 5.1860 |
| 16 | g9563.t2 | SMART | SM00369 | LRR_typ_2 | 1 | 24 | 15.0000 |
| 11 | g9563.t2 | SMART | SM00369 | LRR_typ_2 | 26 | 48 | 190.0000 |
| 14 | g9563.t2 | SMART | SM00369 | LRR_typ_2 | 50 | 72 | 260.0000 |
| 15 | g9563.t2 | SMART | SM00369 | LRR_typ_2 | 74 | 96 | 69.0000 |
| 8 | g9563.t2 | SMART | SM00369 | LRR_typ_2 | 97 | 120 | 0.0570 |
| 10 | g9563.t2 | SMART | SM00369 | LRR_typ_2 | 122 | 144 | 130.0000 |
| 9 | g9563.t2 | SMART | SM00369 | LRR_typ_2 | 145 | 168 | 0.0061 |
| 13 | g9563.t2 | SMART | SM00369 | LRR_typ_2 | 169 | 192 | 4.3000 |
| 12 | g9563.t2 | SMART | SM00369 | LRR_typ_2 | 199 | 217 | 270.0000 |
| 7 | g9563.t2 | SUPERFAMILY | SSF52058 | L domain-like | 4 | 241 | 0.0000 |
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:0005515 | protein binding | MF |
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