Gene loci information

Transcript annotation

  • This transcript has been annotated as NAD-dependent protein deacetylase Sirt2.

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_3 g3781 g3781.t2 isoform g3781.t2 27950973 27952179
chr_3 g3781 g3781.t2 exon g3781.t2.exon1 27950973 27952179
chr_3 g3781 g3781.t2 cds g3781.t2.CDS1 27950973 27952088
chr_3 g3781 g3781.t2 TSS g3781.t2 27952379 27952379
chr_3 g3781 g3781.t2 TTS g3781.t2 NA NA

Sequences

>g3781.t2 Gene=g3781 Length=1207
AGAAAAATTACCACAAAATGATGATAAAGATAAGCAATCATCTTCTTCGAGTGAGAAAAG
AGAGCAAGAACTTCCTGAATCGGACAGTTTAATGGACAAAATTGCTCATTTTTTTTCTGA
CAAACTTCATTTAAGTTCAGCTGCAGAAGACGATGAGGATGAAGGCGGTCATGTTTTGCA
AAGTGCCACAATCTCTGCACTAATTGATGCATGGAAGCGTGGATGTTTCAAAAAAATTGT
GACTATGGTTGGTGCTGGAATTAGTACTTCCTCTGGCATACCTGATTTTAGATCCAAAAA
TTCCGGACTATATGCAAATTTAAGCAAATACAACCTACCATATCCTGAAGCTATTTTTGA
GATTAACTATTTTCGTGAAAATCCTCAACCGTTTTTTAAATTAGCCAAAGAGCTCTATCC
GGGATCATTTAAACCAACTCCAAGTCATTATTTCATAAAATTGCTTCAAGACAAAGGATT
ATTGCTTAGACATTATACACAAAATATCGATACCTTAGAACGAATAGCTGGAATTGATGA
GGAAAAACTTGTGGAAGCACATGGTACATTTTATAAACACCACTGCATCGATTGTCAAGA
AGAGTATTCAATGGAATGGGCAAAAGAAGAAATTTTTAAGGATAATGTACCAACGTGTAC
AAATTGTAATGGCGTAGTAAAACCTGATATTGTATTTTTTGGGGAAAATTTGCCAGAGCC
TTTTTATGTTCTTCCTCACAGAGATTTTAAACAATGTGATTTATTAATCATCATGGGAAC
TTCTTTAACTGTTCAACCTTTCGCCTCTTTAATTGATTTCGTAAGTGATAGTTGTGTGAG
ACTTTTGATTAATAGAGAAAAAGTTGGCAAGAATAGTGGCGGTGGATTTTTACGTTCTAT
GATTTTCGGTGAAGGCTTATGCTTTGACTTGCCTGGTAATCGACGAGATGTTGCATATGA
AGGTGATTGTGATGATGGATGTTTGTATTTAGCAGATCAATTGGGATTCGGTGATGAACT
TCGAGATCTTGTTAAAAAGGAGCATGAGCGAATTGATATAGAACTTGGAAAAATTAAACG
AAAAGTATCGACTGATGATCAAAGTAAAGATTCATCAGATGAAAAACCAGAAGAGGAGCA
AACGAAAGAGAAATTGTTGAAAAATAATGAAAATTCGAGCAAAAATGATGTTAAAAGTTC
GATTTAA

>g3781.t2 Gene=g3781 Length=371
MDKIAHFFSDKLHLSSAAEDDEDEGGHVLQSATISALIDAWKRGCFKKIVTMVGAGISTS
SGIPDFRSKNSGLYANLSKYNLPYPEAIFEINYFRENPQPFFKLAKELYPGSFKPTPSHY
FIKLLQDKGLLLRHYTQNIDTLERIAGIDEEKLVEAHGTFYKHHCIDCQEEYSMEWAKEE
IFKDNVPTCTNCNGVVKPDIVFFGENLPEPFYVLPHRDFKQCDLLIIMGTSLTVQPFASL
IDFVSDSCVRLLINREKVGKNSGGGFLRSMIFGEGLCFDLPGNRRDVAYEGDCDDGCLYL
ADQLGFGDELRDLVKKEHERIDIELGKIKRKVSTDDQSKDSSDEKPEEEQTKEKLLKNNE
NSSKNDVKSSI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g3781.t2 CDD cd01408 SIRT1 47 300 6.93695E-143
5 g3781.t2 Gene3D G3DSA:3.40.50.1220 - 34 313 4.2E-122
6 g3781.t2 Gene3D G3DSA:3.30.1600.10 SIR2/SIRT2 ‘Small Domain’ 60 210 4.2E-122
9 g3781.t2 MobiDBLite mobidb-lite consensus disorder prediction 331 371 -
10 g3781.t2 MobiDBLite mobidb-lite consensus disorder prediction 331 361 -
2 g3781.t2 PANTHER PTHR11085:SF3 NAD-DEPENDENT PROTEIN DEACETYLASE SIRTUIN-2 24 349 3.1E-132
3 g3781.t2 PANTHER PTHR11085 HISTONE DEACETYLASE SIR2 FAMILY MEMBER 24 349 3.1E-132
7 g3781.t2 PIRSF PIRSF037938 SIR2_euk 13 371 1.1E-141
1 g3781.t2 Pfam PF02146 Sir2 family 54 236 5.2E-63
11 g3781.t2 ProSiteProfiles PS50305 Sirtuin catalytic domain profile. 35 309 50.157
4 g3781.t2 SUPERFAMILY SSF52467 DHS-like NAD/FAD-binding domain 33 320 2.94E-89

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:0070403 NAD+ binding MF
GO:0008270 zinc ion binding MF
GO:0017136 NAD-dependent histone deacetylase activity 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