General information for g9216.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Nicotinamidase.
Parent gene
- The parent gene g9216 is located on chr_1: 863390..883339 (- 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 | g9216 | g9216.t1 | TTS | g9216.t1 | 855348 | 855348 |
| chr_1 | g9216 | g9216.t1 | isoform | g9216.t1 | 856363 | 883339 |
| chr_1 | g9216 | g9216.t1 | exon | g9216.t1.exon1 | 856363 | 856473 |
| chr_1 | g9216 | g9216.t1 | cds | g9216.t1.CDS1 | 856363 | 856473 |
| chr_1 | g9216 | g9216.t1 | exon | g9216.t1.exon2 | 856706 | 856848 |
| chr_1 | g9216 | g9216.t1 | cds | g9216.t1.CDS2 | 856706 | 856848 |
| chr_1 | g9216 | g9216.t1 | exon | g9216.t1.exon3 | 856907 | 857075 |
| chr_1 | g9216 | g9216.t1 | cds | g9216.t1.CDS3 | 856907 | 857075 |
| chr_1 | g9216 | g9216.t1 | exon | g9216.t1.exon4 | 857195 | 857257 |
| chr_1 | g9216 | g9216.t1 | cds | g9216.t1.CDS4 | 857195 | 857257 |
| chr_1 | g9216 | g9216.t1 | exon | g9216.t1.exon5 | 857430 | 857495 |
| chr_1 | g9216 | g9216.t1 | cds | g9216.t1.CDS5 | 857430 | 857495 |
| chr_1 | g9216 | g9216.t1 | exon | g9216.t1.exon6 | 859141 | 859275 |
| chr_1 | g9216 | g9216.t1 | cds | g9216.t1.CDS6 | 859141 | 859275 |
| chr_1 | g9216 | g9216.t1 | exon | g9216.t1.exon7 | 863747 | 863851 |
| chr_1 | g9216 | g9216.t1 | cds | g9216.t1.CDS7 | 863747 | 863851 |
| chr_1 | g9216 | g9216.t1 | exon | g9216.t1.exon8 | 865492 | 865544 |
| chr_1 | g9216 | g9216.t1 | cds | g9216.t1.CDS8 | 865492 | 865544 |
| chr_1 | g9216 | g9216.t1 | exon | g9216.t1.exon9 | 867493 | 867626 |
| chr_1 | g9216 | g9216.t1 | cds | g9216.t1.CDS9 | 867493 | 867626 |
| chr_1 | g9216 | g9216.t1 | exon | g9216.t1.exon10 | 883269 | 883339 |
| chr_1 | g9216 | g9216.t1 | cds | g9216.t1.CDS10 | 883269 | 883339 |
| chr_1 | g9216 | g9216.t1 | TSS | g9216.t1 | NA | NA |
Sequences
>g9216.t1 Gene=g9216 Length=1050
ATGAGTTCTGAACCAATCGAGCCATCATTAGTCGCTATGGATAGCTGCTTCACAGCATTT
GATAAGGACTGTGACGACCGCTTATCTTTGGCAGAGTTCACGCTCATCTGTCGAGCATTG
TTTCGCAATGATAAAGGACATATTTATATAGTACCATCGGATCAGTTGGAGCAAATGTTT
GCCGTATTTGATAAAAATCAGGATGGCTATATAGATCGTGATGAATTTACATTCTGTTGG
AATTCATGGATCAAAACAATTGTGAGACCAATAAATGCTTATCTCGTTGTCGATGTTCAA
AATGACTTCATAAGTGGTTCTTTAAACATCAGCAATTGCTCTGCACAACAGAATGGCATC
GAGGTAATTGATCCAATCAACAAGCTAATAGACACGGTTGAATTTGATGCGGTCTTTTAT
TCACTCGATTGGCATCCGGCTGATCACGTATCATTCATTGACAACATTAAGCAGCGTCCA
ATTCATCCAACGAGTCCTTTAAATGCTGACAATGCAGCAGTTTATGATACTGTAATTTTT
GCTGGACCTCCTCCTATGAGGAATCGATTATGGCCGAGACATTGTGTCCAAGATACATGG
GGAAGTGAATTGCATAAAGACCTTAAGATAGTAGAAAATTCTATTAAAGTATATAAGGGC
ACTAATCCAGAAGTTGATTCTTATTCTGTCTTTTGGGACAATAAGAAAATGTCAGATACT
TCTCTATGTGGACAATTGAAGCAAAAAGGCATTACTGATGTATATGTTTGTGGTCTTGCA
TATGATGTTTGTGTTGGAGCTACAGCAACAGATGCCCTTTCAGCTGGATATCGTACAATT
CTTATTGATGATTGTTGCCGTGGTGTAGATCTACAGGACATTGAAACCACAAAAGAGACT
GTCCTCAATAATCATGGCGTCATTGTTCATTCAAAAGAGGTGAAAGCAATGGTTGAAGGA
CGTGATCGCAGACCCGAACTCGGCTTCAAACTCGCAATGGAGTTGAAAAATGCGGAAAAT
GAAAACAAACGTGGTCGAAGGCAGATTTAA
>g9216.t1 Gene=g9216 Length=349
MSSEPIEPSLVAMDSCFTAFDKDCDDRLSLAEFTLICRALFRNDKGHIYIVPSDQLEQMF
AVFDKNQDGYIDRDEFTFCWNSWIKTIVRPINAYLVVDVQNDFISGSLNISNCSAQQNGI
EVIDPINKLIDTVEFDAVFYSLDWHPADHVSFIDNIKQRPIHPTSPLNADNAAVYDTVIF
AGPPPMRNRLWPRHCVQDTWGSELHKDLKIVENSIKVYKGTNPEVDSYSVFWDNKKMSDT
SLCGQLKQKGITDVYVCGLAYDVCVGATATDALSAGYRTILIDDCCRGVDLQDIETTKET
VLNNHGVIVHSKEVKAMVEGRDRRPELGFKLAMELKNAENENKRGRRQI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g9216.t1 | CDD | cd00051 | EFh | 17 | 76 | 1.23572E-10 |
| 9 | g9216.t1 | CDD | cd01011 | nicotinamidase | 92 | 310 | 1.98411E-84 |
| 7 | g9216.t1 | Gene3D | G3DSA:1.10.238.10 | - | 5 | 89 | 1.5E-13 |
| 6 | g9216.t1 | Gene3D | G3DSA:3.40.50.850 | - | 91 | 310 | 1.7E-65 |
| 3 | g9216.t1 | PANTHER | PTHR11080 | PYRAZINAMIDASE/NICOTINAMIDASE | 71 | 337 | 2.4E-80 |
| 1 | g9216.t1 | Pfam | PF13499 | EF-hand domain pair | 15 | 77 | 5.9E-9 |
| 2 | g9216.t1 | Pfam | PF00857 | Isochorismatase family | 93 | 293 | 7.9E-26 |
| 11 | g9216.t1 | ProSitePatterns | PS00018 | EF-hand calcium-binding domain. | 21 | 33 | - |
| 10 | g9216.t1 | ProSitePatterns | PS00018 | EF-hand calcium-binding domain. | 64 | 76 | - |
| 15 | g9216.t1 | ProSiteProfiles | PS50222 | EF-hand calcium-binding domain profile. | 8 | 43 | 9.157 |
| 14 | g9216.t1 | ProSiteProfiles | PS50222 | EF-hand calcium-binding domain profile. | 51 | 86 | 12.784 |
| 12 | g9216.t1 | SMART | SM00054 | efh_1 | 12 | 40 | 2.5 |
| 13 | g9216.t1 | SMART | SM00054 | efh_1 | 55 | 83 | 0.0036 |
| 5 | g9216.t1 | SUPERFAMILY | SSF47473 | EF-hand | 6 | 81 | 9.82E-14 |
| 4 | g9216.t1 | SUPERFAMILY | SSF52499 | Isochorismatase-like hydrolases | 92 | 334 | 3.01E-42 |
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:0005509 | calcium ion 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.
