General information for g15832.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Nucleotide exchange factor Sil1.
Parent gene
- The parent gene g15832 is located on chr_4: 6963760..6969280 (+ 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 | g15832 | g15832.t1 | TSS | g15832.t1 | 6962714 | 6962714 |
| chr_4 | g15832 | g15832.t1 | isoform | g15832.t1 | 6962775 | 6964388 |
| chr_4 | g15832 | g15832.t1 | exon | g15832.t1.exon1 | 6962775 | 6962922 |
| chr_4 | g15832 | g15832.t1 | cds | g15832.t1.CDS1 | 6962775 | 6962922 |
| chr_4 | g15832 | g15832.t1 | exon | g15832.t1.exon2 | 6963220 | 6964388 |
| chr_4 | g15832 | g15832.t1 | cds | g15832.t1.CDS2 | 6963220 | 6964388 |
| chr_4 | g15832 | g15832.t1 | TTS | g15832.t1 | 6964466 | 6964466 |
Sequences
>g15832.t1 Gene=g15832 Length=1317
ATGATGAAATTAAAAATCTTAGTCATTATTTTAGTAATTCAAATTACATTTAAAGTAGCA
AAAAGTGTAGATTTATCAATAGGAACAAAAGAAGGAGAAGAAAACTCAACTTTTATAGCT
ACTGAGGAATGGCAGGAAATTAAACCAGGCCAAAAAGTTCCACAAGGACTTCACTATCGT
CTGAATCTTCAAACAGGTAAAAAAGAAGCAAAACTACTTGATCCAGAAGAAAATGAACCT
CAATCACAATCATCATTTCAAATGGTTCCACAAACAAATGAAAAACAAGAAGAAGAGGAA
GCTTCAATTGAAAGTGCTAAAAAACGACTTGAAGAAGCATTAAAAAATATTCCAGCAGAA
ACTTTCGATCAAGAAACTGAAGAAAAATGGAAAGAAATAAAAAATAAATTTAAATCATAT
GAAGAAATTAAGCAAGATTTAAAAGATCTCGATTTAGCACCAAAAACTGAAGCTGAAGTT
TTGACTCAACTTATGGAAGAATTTGAAAGCAAACCAGAAAATAGTTTGGACATTTTAAAA
GATATGGAATTTATTTTGCATTCAATTGACAATGCTTTGCTTTTTATATCAAAAAATGGA
ATAGAAAAAATTGTCATTCCTCACCTAATCAATCAAACTGACGTGGCTCAACGAGTAATT
CTTCTAAAAATTGTTGGTGCAATTTCACAAAATAATTTACAAGCTAAAAATTATTTATCA
GAAAAAACAAATTTAGTCAATGAATTAATATTTCTTCTTGAAAAACATGAAACACAAGAA
GAACTTTCAGCTGGACTTTTTAGTGTTGGAAGTTTAATGAGAAATAATAAAATTTTAGGT
TTAAACAATTTAAAAAAAGTTCTTGAAGTTCTTTTGAGGTTTCTTGAAAAAGAATCACTT
GGGACAAGTTTAAAAGTTAAATCATTGCTGTTGATTGAAGATTTAATTTTAAGCTCAAAA
GATGAACTTAATTCATTCATAGAAAGCAACAAAATTTGCCAACAACTTTCAAATTTCTTT
AAACTTAATAAAAATTCTTTCCTAGTTGACACCGATTCAGCTGAAAGATCAGCAGGATCA
TTTACAGTTTTAAATGGAAAATGTAAACACATATGGAGTGAAGATCCAAATTTGAGACAT
GCATTACTTGTTGTAATGAATAATTATATGATGAAATTAAGAGAAGAAAGTGATGATGAT
TTGAGATTTTTTTATGGACTTGTAGCTGAAAATTTTGAAAGTTTAAATGAAATGCTTTAT
GGAGATTTAAAAATTAGTAGTGATGATTTAAGTCAAAAATATAATGATGAATTGTAG
>g15832.t1 Gene=g15832 Length=438
MMKLKILVIILVIQITFKVAKSVDLSIGTKEGEENSTFIATEEWQEIKPGQKVPQGLHYR
LNLQTGKKEAKLLDPEENEPQSQSSFQMVPQTNEKQEEEEASIESAKKRLEEALKNIPAE
TFDQETEEKWKEIKNKFKSYEEIKQDLKDLDLAPKTEAEVLTQLMEEFESKPENSLDILK
DMEFILHSIDNALLFISKNGIEKIVIPHLINQTDVAQRVILLKIVGAISQNNLQAKNYLS
EKTNLVNELIFLLEKHETQEELSAGLFSVGSLMRNNKILGLNNLKKVLEVLLRFLEKESL
GTSLKVKSLLLIEDLILSSKDELNSFIESNKICQQLSNFFKLNKNSFLVDTDSAERSAGS
FTVLNGKCKHIWSEDPNLRHALLVVMNNYMMKLREESDDDLRFFYGLVAENFESLNEMLY
GDLKISSDDLSQKYNDEL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g15832.t1 | Coils | Coil | Coil | 93 | 116 | - |
| 6 | g15832.t1 | Gene3D | G3DSA:1.25.10.10 | - | 138 | 417 | 1.2E-15 |
| 13 | g15832.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 73 | 105 | - |
| 14 | g15832.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 77 | 92 | - |
| 1 | g15832.t1 | PANTHER | PTHR19316 | PROTEIN FOLDING REGULATOR | 30 | 396 | 7.1E-51 |
| 2 | g15832.t1 | PANTHER | PTHR19316:SF32 | NUCLEOTIDE EXCHANGE FACTOR SIL1 | 30 | 396 | 7.1E-51 |
| 9 | g15832.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 22 | - |
| 10 | g15832.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 5 | - |
| 11 | g15832.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 6 | 17 | - |
| 12 | g15832.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 18 | 22 | - |
| 8 | g15832.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 23 | 438 | - |
| 3 | g15832.t1 | SUPERFAMILY | SSF48371 | ARM repeat | 148 | 343 | 3.54E-9 |
| 5 | g15832.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 22 | - |
| 4 | g15832.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 22 | - |
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 transcript has been annotated with K14001 (nucleotide exchange factor SIL1)
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.
