Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Nicotinamidase.

Parent gene

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.t7 isoform g9216.t7 855333 867626
chr_1 g9216 g9216.t7 exon g9216.t7.exon1 855333 856473
chr_1 g9216 g9216.t7 TTS g9216.t7 855348 855348
chr_1 g9216 g9216.t7 cds g9216.t7.CDS1 856363 856473
chr_1 g9216 g9216.t7 exon g9216.t7.exon2 856706 856848
chr_1 g9216 g9216.t7 cds g9216.t7.CDS2 856706 856848
chr_1 g9216 g9216.t7 exon g9216.t7.exon3 856907 857075
chr_1 g9216 g9216.t7 cds g9216.t7.CDS3 856907 857075
chr_1 g9216 g9216.t7 exon g9216.t7.exon4 857195 857257
chr_1 g9216 g9216.t7 cds g9216.t7.CDS4 857195 857257
chr_1 g9216 g9216.t7 exon g9216.t7.exon5 857430 857495
chr_1 g9216 g9216.t7 cds g9216.t7.CDS5 857430 857495
chr_1 g9216 g9216.t7 exon g9216.t7.exon6 859141 859275
chr_1 g9216 g9216.t7 cds g9216.t7.CDS6 859141 859275
chr_1 g9216 g9216.t7 exon g9216.t7.exon7 863747 863851
chr_1 g9216 g9216.t7 cds g9216.t7.CDS7 863747 863851
chr_1 g9216 g9216.t7 exon g9216.t7.exon8 865492 865544
chr_1 g9216 g9216.t7 cds g9216.t7.CDS8 865492 865544
chr_1 g9216 g9216.t7 exon g9216.t7.exon9 867493 867626
chr_1 g9216 g9216.t7 cds g9216.t7.CDS9 867493 867523
chr_1 g9216 g9216.t7 TSS g9216.t7 NA NA

Sequences

>g9216.t7 Gene=g9216 Length=2009
TGACGACCGCTTATCTTTGGCAGAGTTCACGCTCATCTGTCGAGCATTGTTTCGCAATGA
TAAAGGACATATTTATATAGTACCATCGGATCAGTTGGAGCAAATGTTTGCCGTATTTGA
TAAAAATCAGGATGGCTATATAGATCGTGATGAATTTACATTCTGTTGGAATTCATGGAT
CAAAACAATTGTGAGACCAATAAATGCTTATCTCGTTGTCGATGTTCAAAATGACTTCAT
AAGTGGTTCTTTAAACATCAGCAATTGCTCTGCACAACAGAATGGCATCGAGGTAATTGA
TCCAATCAACAAGCTAATAGACACGGTTGAATTTGATGCGGTCTTTTATTCACTCGATTG
GCATCCGGCTGATCACGTATCATTCATTGACAACATTAAGCAGCGTCCAATTCATCCAAC
GAGTCCTTTAAATGCTGACAATGCAGCAGTTTATGATACTGTAATTTTTGCTGGACCTCC
TCCTATGAGGAATCGATTATGGCCGAGACATTGTGTCCAAGATACATGGGGAAGTGAATT
GCATAAAGACCTTAAGATAGTAGAAAATTCTATTAAAGTATATAAGGGCACTAATCCAGA
AGTTGATTCTTATTCTGTCTTTTGGGACAATAAGAAAATGTCAGATACTTCTCTATGTGG
ACAATTGAAGCAAAAAGGCATTACTGATGTATATGTTTGTGGTCTTGCATATGATGTTTG
TGTTGGAGCTACAGCAACAGATGCCCTTTCAGCTGGATATCGTACAATTCTTATTGATGA
TTGTTGCCGTGGTGTAGATCTACAGGACATTGAAACCACAAAAGAGACTGTCCTCAATAA
TCATGGCGTCATTGTTCATTCAAAAGAGGTGAAAGCAATGGTTGAAGGACGTGATCGCAG
ACCCGAACTCGGCTTCAAACTCGCAATGGAGTTGAAAAATGCGGAAAATGAAAACAAACG
TGGTCGAAGGCAGATTTAAGCAACAGCAGTAGCAGCCAAAAGTAGAAAATTTCCTCGCGC
TACTTCTCCCTTCATAATGACACTTTTTTTCTCTTCTTCCGCTCTATATGTTAAGCATTC
ATGTTATTTTGTAGCAATACTTGTATACCCTAGAGTAGTCGCCGCCACTTTCTCTTGCTC
TCACAATTTATGTGCATTTTTGATTCTTTTTTTATTTCCTTCTTTTTCTCTTGCCTCTGC
AACTTATGTAGATTTTTAAGTGCTCAAGGATTTTATGCGGAAGAACAAAAAATACTTAAA
TATTATATGCATAATGAGAGTAAGTCGAAGTGAATGTAGATCTTGAAAAAAATGCAGAAT
TTTTTATGTAAATTTAATTTTCACAACTGAAATTAACAAAAGTTTACTTACTGACATTTC
CATAAAATGAATTAATACCAATTATTAGTTTTATGCTCTAAAATTTACTATACATTCCAA
ATTTTAATTCCTTTAGTTGCATAAAAAGTGTTTTCATTATTAAAATTAAAGAGAATGCAA
TGAACAAATTTAATATTCGTGTTTACTTGTATAGCAACTAAATTACATAGTTTTCTGTTT
TATTTACTTGATTAAACATAAATTGCAAGAAAATTAACTTTTAAGTGCTTTCAATGATGA
TGAAGAAGAAGATTTAATATTTACTTAATATTACTAACAATAATGATGATGATAGAATAA
TAATGTAATAAAGAGAATGGAGATGCACTTTTGAATGTTGAGAGACAATTTCACTTGACG
TTTATCACTTTAATTATATCTTATTCTCTCAGTGTTTGTACTTACACTCTCCTATCATCA
TCATCTTTTTTTCTTTCTTCATCATATTTTAAACATTCTTATTATTTTTATTAAAAGCTA
AAAAATATTAAAAGTTGATATCTCGATGTAAAAATAATAAAAAAATGTACTTAGAATGAT
TAAAAAAGGGTTAAATGACATCATTGTATAAAATTAAAGCTTTAAATTCAAAATAAAAAA
AAATATTGAGGAAAACACAAGAAATGCAG

>g9216.t7 Gene=g9216 Length=291
MFAVFDKNQDGYIDRDEFTFCWNSWIKTIVRPINAYLVVDVQNDFISGSLNISNCSAQQN
GIEVIDPINKLIDTVEFDAVFYSLDWHPADHVSFIDNIKQRPIHPTSPLNADNAAVYDTV
IFAGPPPMRNRLWPRHCVQDTWGSELHKDLKIVENSIKVYKGTNPEVDSYSVFWDNKKMS
DTSLCGQLKQKGITDVYVCGLAYDVCVGATATDALSAGYRTILIDDCCRGVDLQDIETTK
ETVLNNHGVIVHSKEVKAMVEGRDRRPELGFKLAMELKNAENENKRGRRQI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g9216.t7 CDD cd01011 nicotinamidase 34 252 3.47693E-85
8 g9216.t7 Gene3D G3DSA:1.10.238.10 - 1 25 2.1E-5
7 g9216.t7 Gene3D G3DSA:3.40.50.850 - 33 252 9.8E-66
3 g9216.t7 PANTHER PTHR11080 PYRAZINAMIDASE/NICOTINAMIDASE 13 279 1.4E-80
2 g9216.t7 Pfam PF00036 EF hand 1 22 3.1E-6
1 g9216.t7 Pfam PF00857 Isochorismatase family 35 235 4.5E-26
6 g9216.t7 ProSitePatterns PS00018 EF-hand calcium-binding domain. 6 18 -
9 g9216.t7 ProSiteProfiles PS50222 EF-hand calcium-binding domain profile. 1 28 11.445
5 g9216.t7 SUPERFAMILY SSF47473 EF-hand 1 31 1.44E-5
4 g9216.t7 SUPERFAMILY SSF52499 Isochorismatase-like hydrolases 34 276 1.7E-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

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.

Raw TPM values