General information for g8373.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Staphylococcal nuclease domain-containing protein 1.
Parent gene
- The parent gene g8373 is located on chr_2: 30064065..30066207 (- 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_2 | g8373 | g8373.t6 | isoform | g8373.t6 | 30063272 | 30064786 |
| chr_2 | g8373 | g8373.t6 | exon | g8373.t6.exon1 | 30063272 | 30063782 |
| chr_2 | g8373 | g8373.t6 | cds | g8373.t6.CDS1 | 30063274 | 30063782 |
| chr_2 | g8373 | g8373.t6 | exon | g8373.t6.exon2 | 30064062 | 30064786 |
| chr_2 | g8373 | g8373.t6 | cds | g8373.t6.CDS2 | 30064062 | 30064722 |
| chr_2 | g8373 | g8373.t6 | TSS | g8373.t6 | NA | NA |
| chr_2 | g8373 | g8373.t6 | TTS | g8373.t6 | NA | NA |
Sequences
>g8373.t6 Gene=g8373 Length=1236
TCCATCTGAAGAAGGAACAAAAGATGAGCCGTGGGCATGGGAAGCCAGAGAATTCCTTCG
TCAAATGCTTGTTGGTGAAGAAGTTTATTTCCAATGTGAACGTAAACCGAATGCTACTCG
TGATTATGGTGTCATTTTCATCGGAAAAGATCCAAACAATTTGACTAATGTCACTGAACT
TGCTGTCTCGGAAGGTCTTATACAAGTCCGCCGTGAAAATGTTCGTACTACTCCTGAATT
ACAACGACTCATTGAACTAGAGGATCAAGCTAAGGCACAAGGAAAAGGTCGTTATAGTTC
AAACCCGCCAATTGTACGCAATATTGTGTGGCAAATCGAAAATCCCCGTCATTTTGTAGA
CTTGCAAGCAGGAAAACCTGTGAGGGCAATTATCGAACATGTGCGTGATGGCTCAACTGT
TAGAGCTTTCCTACTTCCCGGATTCCAATATGTTACATTAATGATCAGTGGAATCCGTTG
CCCTGGTTTTAAACTAGATAATGATGGAAGACCTGATCCATCTGTAGTTGTACCTTATGC
TGAAGAAGCCCGATACTTTGTAGAATCGAGACTTTTGCAACGCGATGTTGAAATTGTACT
AGAATCAAATAATAATTCAAACTTTGTTGGTACTATCTTGTTCCCGAAAGGTAATATTGC
CGAAGCACTTTTGCGTGAAGGATTTGCCAAATGTGTAGACTGGAGCATGGCATTTATGAA
AACTGGTGTTGATAAGTTGCGTGCTGCTGAACGTCATGCTAAAAATAATCGAGTTCGTTT
ATGGAAAGATTATACGCCGCCAATTGCTCAATTTAGTGGCAAGGAGAAGGATTTCACTGG
AACTGTCATCGAGGTTCATAATGGAGATGCAATTACTGTCAAAGTAAACAATAATCAAGT
TAAAAAAGTCTTTTTCTCAAGCATTCGTCCTCCTCGTGAAGCTGCAAAAGTTACTGATGA
GTCTGAAGGCAAACCTGCTCCTCCCGCAACTAATAAGTCTGGTCGTCCACTTTACGATGT
ACCATGGCTCTTTGAAGCTCGTGAATTCCTGCGTAAGAAATTAATTGGCAAGACTGTCAA
GTGTACACTTGATTATGTATCACCTGCGCGAGATAATTTCCCAGAAAAGTTCTGCTATAC
AGTCACTATTGGTGGCTCAAATGTTGCTGAAGCATTGGTGAGCAAAGGTCTTGCACAAGT
CATTCGTTATCGTCAAGATGATGATCAGCGTTCATC
>g8373.t6 Gene=g8373 Length=390
MLVGEEVYFQCERKPNATRDYGVIFIGKDPNNLTNVTELAVSEGLIQVRRENVRTTPELQ
RLIELEDQAKAQGKGRYSSNPPIVRNIVWQIENPRHFVDLQAGKPVRAIIEHVRDGSTVR
AFLLPGFQYVTLMISGIRCPGFKLDNDGRPDPSVVVPYAEEARYFVESRLLQRDVEIVLE
SNNNSNFVGTILFPKGNIAEALLREGFAKCVDWSMAFMKTGVDKLRAAERHAKNNRVRLW
KDYTPPIAQFSGKEKDFTGTVIEVHNGDAITVKVNNNQVKKVFFSSIRPPREAAKVTDES
EGKPAPPATNKSGRPLYDVPWLFEAREFLRKKLIGKTVKCTLDYVSPARDNFPEKFCYTV
TIGGSNVAEALVSKGLAQVIRYRQDDDQRS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g8373.t6 | CDD | cd00175 | SNc | 112 | 242 | 0.0000000 |
| 10 | g8373.t6 | Gene3D | G3DSA:2.40.50.90 | - | 1 | 94 | 0.0000000 |
| 11 | g8373.t6 | Gene3D | G3DSA:2.40.50.90 | - | 95 | 252 | 0.0000000 |
| 12 | g8373.t6 | Gene3D | G3DSA:2.40.50.90 | - | 253 | 390 | 0.0000000 |
| 3 | g8373.t6 | PANTHER | PTHR12302:SF2 | STAPHYLOCOCCAL NUCLEASE DOMAIN-CONTAINING PROTEIN 1 | 1 | 390 | 0.0000000 |
| 4 | g8373.t6 | PANTHER | PTHR12302 | EBNA2 BINDING PROTEIN P100 | 1 | 390 | 0.0000000 |
| 2 | g8373.t6 | Pfam | PF00565 | Staphylococcal nuclease homologue | 134 | 242 | 0.0000000 |
| 1 | g8373.t6 | Pfam | PF00565 | Staphylococcal nuclease homologue | 307 | 385 | 0.0000230 |
| 13 | g8373.t6 | ProSiteProfiles | PS50830 | Thermonuclease domain profile. | 104 | 242 | 30.0570000 |
| 14 | g8373.t6 | ProSiteProfiles | PS50830 | Thermonuclease domain profile. | 255 | 390 | 22.1230000 |
| 8 | g8373.t6 | SMART | SM00318 | SNASE_2 | 104 | 242 | 0.0000000 |
| 9 | g8373.t6 | SMART | SM00318 | SNASE_2 | 255 | 390 | 0.0000000 |
| 7 | g8373.t6 | SUPERFAMILY | SSF50199 | Staphylococcal nuclease | 2 | 82 | 0.0000004 |
| 5 | g8373.t6 | SUPERFAMILY | SSF50199 | Staphylococcal nuclease | 99 | 245 | 0.0000000 |
| 6 | g8373.t6 | SUPERFAMILY | SSF50199 | Staphylococcal nuclease | 250 | 386 | 0.0000000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
