General information for g16491.t1
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 g16491 is located on chr_4: 9689202..9691208 (+ 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_4 | g16491 | g16491.t1 | TSS | g16491.t1 | 9689178 | 9689178 |
| chr_4 | g16491 | g16491.t1 | isoform | g16491.t1 | 9689202 | 9691208 |
| chr_4 | g16491 | g16491.t1 | exon | g16491.t1.exon1 | 9689202 | 9690531 |
| chr_4 | g16491 | g16491.t1 | cds | g16491.t1.CDS1 | 9689202 | 9690531 |
| chr_4 | g16491 | g16491.t1 | exon | g16491.t1.exon2 | 9690743 | 9691109 |
| chr_4 | g16491 | g16491.t1 | cds | g16491.t1.CDS2 | 9690743 | 9691109 |
| chr_4 | g16491 | g16491.t1 | exon | g16491.t1.exon3 | 9691172 | 9691208 |
| chr_4 | g16491 | g16491.t1 | cds | g16491.t1.CDS3 | 9691172 | 9691208 |
| chr_4 | g16491 | g16491.t1 | TTS | g16491.t1 | 9691332 | 9691332 |
Sequences
>g16491.t1 Gene=g16491 Length=1734
ATGAAGTTGATATTTCTATTTTTATCATATTTTATTTCATACACTGTTGCACAACAAGCA
ATTTGTGAATTTGGAATAAGAAATGTTGGTGGTGTTATAGGTTATTCTTGTGGTTTATCA
GTGAACAATCCTGAAGGTCAAACAATTACAGAAATTGGAGGTATTCATTTAGAAGGTTAC
ACTGATGCTGATGTACAAGGAATTTTGCGTATTAACGGTTCAATTGAGACAGCTTTTCCT
GCAATTTTCTGTCAACGATTTCCAAATATTCAAAGAGCTTTAGTTCATGGTTTAAATATC
ACTGAAATTACAGATAATTCATTTTCCACGTGTACTTCACTCGACTGGCTTTATATTTTA
TCGAATAGAATCAGTTCAATTAGTCAAAATGCTTTTGCCAATAATCAAAATTTGATTCAT
ATTGATTTGGACAATAATTTATTATCGACTTTACCTGAAAATGTTTTTGGAACTTTGAGT
AATTTAGAAATTCTTGACTTAAGAAATAATCCATTTGTTGAAATTCCATCTGGTGCTTTT
AATGGATTGAGTTCTTTACAAATTCTGTATATGCAAAACACAAGACTTACAGCCATAAAT
CCAGCTTGGTTTTCGTCAACATCAAATTTAGAAACTTTATATTTGACAAATAATCAAATC
AGTCAAATTTCTCCAAATACTTTTAATAATTTACAAAATTTGATATCACTAAATCTAAAT
GGCAACAACATTGGAGCTTTTCAAGCTGAAACATTTTCTGGCTTAAGAAATCTTCAATCT
CTTTCTGTTGGTGGCAATAACATCAGTGAAATTAATAAAAATTCTTTTGTTGGCCTTGAA
AATCTTTTGACGCTTGATTTAAGTGGAAATTTCTTTTCAATCATTAGAAATGGAACTTTT
AGAGCTTTGACAAATCTTCGATCACTTTTATTGAGTAATTCAAGAATTAATGACTTTGAA
ATTGATGCTTTTGATGGACTAACAAATTTAACAATTCTGAATTTGAATTTTAATTTACTC
GAGGATTTGCCAGCATCAGTTTTTGCTCCTTTAAGAAATTTAGAATATTGTGGTCTTTGG
AGCAACAGAATAAAAACATTCAGAAGAAATGTTTTTGGAACTGACTTGTCAACTCTTTTG
ACTTTAGATTTGGATGAAAATGTTGTTAATGCACTTGAAAGAAGTGTTTTTTATGATGCA
ACAAATTTGAATCGATTTTTATTTAGTAGCAATTTTTGTGGGAATGGAATTTTCAATGGA
TTTGCACAAAATAGAGCGGAATTTATGCAGAGACTTGAACGATGCTTCAGAAACTTTGAG
TTAATTATTGATACCGTAACTGATAACAATGTCGATTATCTTTTCTTCCGTGGTGAAAAT
CCTGGAATTGTTGCTCGAGTGCAAGCTGAAGATGAAATTCAAATTGCATTGACACCATTC
AATTTTCCATGGTCACCAATGATTGAGGTCATCATTGGAGCAGCAAACAATACACGATCA
ATCATCAGACGAAATCAAGATGAAGATGTGGCTGTTGTGCCATCACCAGGAATCATCAGG
AGAAATCAACAAAATTTATTCAGAATAGTTTGGGCAAATCATGTGATTTTGGTGTTTAGA
GAGAATGAACAATGGCCATTTTTGGTTCACACAATGATTGACTTTTTTAATGTCAATTTC
TATGGATTGAGAACTTTACAAAGTCGTGCAACATGGAGCATACAACCAGTTTGA
>g16491.t1 Gene=g16491 Length=577
MKLIFLFLSYFISYTVAQQAICEFGIRNVGGVIGYSCGLSVNNPEGQTITEIGGIHLEGY
TDADVQGILRINGSIETAFPAIFCQRFPNIQRALVHGLNITEITDNSFSTCTSLDWLYIL
SNRISSISQNAFANNQNLIHIDLDNNLLSTLPENVFGTLSNLEILDLRNNPFVEIPSGAF
NGLSSLQILYMQNTRLTAINPAWFSSTSNLETLYLTNNQISQISPNTFNNLQNLISLNLN
GNNIGAFQAETFSGLRNLQSLSVGGNNISEINKNSFVGLENLLTLDLSGNFFSIIRNGTF
RALTNLRSLLLSNSRINDFEIDAFDGLTNLTILNLNFNLLEDLPASVFAPLRNLEYCGLW
SNRIKTFRRNVFGTDLSTLLTLDLDENVVNALERSVFYDATNLNRFLFSSNFCGNGIFNG
FAQNRAEFMQRLERCFRNFELIIDTVTDNNVDYLFFRGENPGIVARVQAEDEIQIALTPF
NFPWSPMIEVIIGAANNTRSIIRRNQDEDVAVVPSPGIIRRNQQNLFRIVWANHVILVFR
ENEQWPFLVHTMIDFFNVNFYGLRTLQSRATWSIQPV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 19 | g16491.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 55 | 206 | 1.7E-31 |
| 18 | g16491.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 207 | 294 | 1.7E-21 |
| 20 | g16491.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 295 | 416 | 3.8E-19 |
| 7 | g16491.t1 | PANTHER | PTHR46473:SF8 | ELRR (EXTRACELLULAR LEUCINE-RICH REPEAT) ONLY | 96 | 147 | 2.5E-93 |
| 12 | g16491.t1 | PANTHER | PTHR46473 | GH08155P | 96 | 147 | 2.5E-93 |
| 10 | g16491.t1 | PANTHER | PTHR46473:SF8 | ELRR (EXTRACELLULAR LEUCINE-RICH REPEAT) ONLY | 97 | 234 | 2.5E-93 |
| 15 | g16491.t1 | PANTHER | PTHR46473 | GH08155P | 97 | 234 | 2.5E-93 |
| 9 | g16491.t1 | PANTHER | PTHR46473:SF8 | ELRR (EXTRACELLULAR LEUCINE-RICH REPEAT) ONLY | 141 | 290 | 2.5E-93 |
| 14 | g16491.t1 | PANTHER | PTHR46473 | GH08155P | 141 | 290 | 2.5E-93 |
| 6 | g16491.t1 | PANTHER | PTHR46473:SF8 | ELRR (EXTRACELLULAR LEUCINE-RICH REPEAT) ONLY | 208 | 340 | 2.5E-93 |
| 11 | g16491.t1 | PANTHER | PTHR46473 | GH08155P | 208 | 340 | 2.5E-93 |
| 8 | g16491.t1 | PANTHER | PTHR46473:SF8 | ELRR (EXTRACELLULAR LEUCINE-RICH REPEAT) ONLY | 266 | 410 | 2.5E-93 |
| 13 | g16491.t1 | PANTHER | PTHR46473 | GH08155P | 266 | 410 | 2.5E-93 |
| 1 | g16491.t1 | Pfam | PF13855 | Leucine rich repeat | 160 | 220 | 4.0E-15 |
| 4 | g16491.t1 | Pfam | PF00560 | Leucine Rich Repeat | 233 | 255 | 1.6 |
| 2 | g16491.t1 | Pfam | PF13855 | Leucine rich repeat | 256 | 316 | 1.9E-12 |
| 3 | g16491.t1 | Pfam | PF13306 | BspA type Leucine rich repeat region (6 copies) | 323 | 412 | 0.0028 |
| 5 | g16491.t1 | Pfam | PF12248 | Farnesoic acid 0-methyl transferase | 475 | 568 | 4.7E-15 |
| 22 | g16491.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 17 | - |
| 23 | g16491.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 24 | g16491.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 12 | - |
| 25 | g16491.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 13 | 17 | - |
| 21 | g16491.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 18 | 577 | - |
| 45 | g16491.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 113 | 134 | 6.588 |
| 39 | g16491.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 137 | 158 | 6.603 |
| 42 | g16491.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 161 | 182 | 7.204 |
| 41 | g16491.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 185 | 206 | 4.547 |
| 46 | g16491.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 209 | 230 | 8.528 |
| 40 | g16491.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 233 | 254 | 6.026 |
| 47 | g16491.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 257 | 278 | 6.934 |
| 48 | g16491.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 281 | 302 | 6.11 |
| 49 | g16491.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 305 | 326 | 5.64 |
| 44 | g16491.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 329 | 350 | 7.419 |
| 43 | g16491.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 378 | 399 | 4.747 |
| 37 | g16491.t1 | SMART | SM00369 | LRR_typ_2 | 111 | 134 | 100.0 |
| 32 | g16491.t1 | SMART | SM00369 | LRR_typ_2 | 136 | 158 | 8.2 |
| 30 | g16491.t1 | SMART | SM00369 | LRR_typ_2 | 159 | 182 | 1.3E-4 |
| 31 | g16491.t1 | SMART | SM00369 | LRR_typ_2 | 183 | 206 | 6.9 |
| 29 | g16491.t1 | SMART | SM00369 | LRR_typ_2 | 207 | 230 | 0.12 |
| 28 | g16491.t1 | SMART | SM00369 | LRR_typ_2 | 231 | 254 | 0.7 |
| 34 | g16491.t1 | SMART | SM00369 | LRR_typ_2 | 255 | 278 | 0.21 |
| 35 | g16491.t1 | SMART | SM00369 | LRR_typ_2 | 279 | 302 | 0.081 |
| 38 | g16491.t1 | SMART | SM00369 | LRR_typ_2 | 303 | 326 | 4.7 |
| 36 | g16491.t1 | SMART | SM00369 | LRR_typ_2 | 327 | 350 | 9.2E-4 |
| 33 | g16491.t1 | SMART | SM00369 | LRR_typ_2 | 351 | 374 | 82.0 |
| 27 | g16491.t1 | SMART | SM00369 | LRR_typ_2 | 376 | 399 | 29.0 |
| 16 | g16491.t1 | SUPERFAMILY | SSF52058 | L domain-like | 80 | 412 | 1.11E-57 |
| 17 | g16491.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 17 | - |
| 26 | g16491.t1 | SignalP_GRAM_NEGATIVE | 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:0005515 | protein binding | MF |
KEGG
Orthology
- This transcript has been annotated with K16351 (netrin-G2 ligand)
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. There were no conditions that were differentially expressed