General information for g2987.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Puff-specific protein Bx42.
Parent gene
- The parent gene g2987 is located on chr_3: 21747441..21748541 (- 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_3 | g2987 | g2987.t1 | TTS | g2987.t1 | 21746740 | 21746740 |
| chr_3 | g2987 | g2987.t1 | isoform | g2987.t1 | 21746857 | 21748541 |
| chr_3 | g2987 | g2987.t1 | exon | g2987.t1.exon1 | 21746857 | 21748394 |
| chr_3 | g2987 | g2987.t1 | cds | g2987.t1.CDS1 | 21746857 | 21748394 |
| chr_3 | g2987 | g2987.t1 | exon | g2987.t1.exon2 | 21748466 | 21748541 |
| chr_3 | g2987 | g2987.t1 | cds | g2987.t1.CDS2 | 21748466 | 21748541 |
| chr_3 | g2987 | g2987.t1 | TSS | g2987.t1 | NA | NA |
Sequences
>g2987.t1 Gene=g2987 Length=1614
ATGTCATTAAGAACGGTATTACCGTCACCGATTAATCAAGTTTATGATCGAGATGATGAG
AAATCGACAGTAAAAGTGAATTTAGGTGTTTTACAGCAAGCAAAAAGCTCAGCACCACCA
TATGGCGCAAGAAGAGGCTTCATACCGAGAACAGAATCAGATTATGGTGATGGCGGCGCA
TATCCAGAAATTCATGTTGCTCAATATCCCTTAAACATGGGACGACCTAATTCAAGCAAA
AAATCAAACGCACTCGCATTACAAACAGATTCTACTGGAAAAGTGAAATATGATATAATA
GCAAAACAAGGACATGGAAAAGATAAAATTGTATATTCAAATATTAATCAATTACTTCCA
GCTGAAGTATTATCAGAGGATGCACCAGAATTACAGAGACCATCAGAAGAAGAAATCAAT
GATATTACTGAGAATACTAGAAAAGCTTTGGAAAAATTGACAAATCAGAAAATTGCAGCC
GCAATGCCAGTAAGAGCTGCAGAAAAACAAGCAGCAGCTCAATATATTCGTTATAAACCT
TCTCAACAAGCAATGCAATTCAATTCTGGTGCAAAGGAACGAATAATTCGAATGGTTGAA
GCTCAAGTTGATCCAATGGAACCGCCAAAATTTAAAATTAACAAAAAAATTCCACGAGCA
CCACCTTCACCACCAGCTCCTGTCCTTCACTCGCCTAGTCGAAAAGTATCTGTAAAAGAG
CAAAAAGATTGGAAAGTGCCCCCATGTATTAGTAATTGGAAAAACGCTAAAGGTTATACA
ATTCCACTCGATAAACGTCTTGCTGCTGATGGTCGAGGATTGCAACAAGTGCATATTAAT
GAAAAATTTGCAAAAATGGCAGAAGCATTGTATATTGCTGATCGAAAAGCACGAGAAGCT
GTAGAAGCTCGTGCACAGCTTGAAAAGAAATTGGCACAGAAAGAAAAAGATAAGAAGGAA
GAACAATTGCGTCAAATGGCTCAACGTGCACGTGAAGAAAGAGCAGGTATCAGTAGATAC
ACAGGAAATGATGGTGAAGTTTCTGCTGATGTGCGCGAACGCGATGAAATTCGTGATCAA
CGTCATAGAGAACGCGCAAGAGATCGTAATTTGGCAAGAGCTGCTCCTGATAAACGATCG
AAATTGCAAAAGGAACGTGAAAGAGATATTAGTGAACAAATTGCACTCGGATTGCCTGCG
AAAACTCAATTCAGTGGCGAGGGTCAATTTGATCAACGATTATTTAACACAAGCAAAGGC
ATGGATTCAGGATATGGTGATGATGAAGCTTATAATGTTTATGATAAACCATGGCGAGAA
GCAAACAGCATGGCATCACATCTTTATCGTCCAAGTAAACAAATTGATCAAGATATATAT
GGCGGTGACTTAGATAAAATTGTAAATACAAGTCGCTTTGTTCCTGATAAAGAATTCTCG
GGAACTGATCGTTCTGGCAAAAATGCACGCCAAGGACCCGTACAATTTGAAAAGGAAGAC
GACATTTTTCAACTTGATAAGTTTTTGGATACTGCTAAAACAGGTTCTAAGAGAAAAGAT
GAATCCAGTTCAAGCAAATCAGATCATAGCGAAAAAAAGAGACGAAGAGACTAA
>g2987.t1 Gene=g2987 Length=537
MSLRTVLPSPINQVYDRDDEKSTVKVNLGVLQQAKSSAPPYGARRGFIPRTESDYGDGGA
YPEIHVAQYPLNMGRPNSSKKSNALALQTDSTGKVKYDIIAKQGHGKDKIVYSNINQLLP
AEVLSEDAPELQRPSEEEINDITENTRKALEKLTNQKIAAAMPVRAAEKQAAAQYIRYKP
SQQAMQFNSGAKERIIRMVEAQVDPMEPPKFKINKKIPRAPPSPPAPVLHSPSRKVSVKE
QKDWKVPPCISNWKNAKGYTIPLDKRLAADGRGLQQVHINEKFAKMAEALYIADRKAREA
VEARAQLEKKLAQKEKDKKEEQLRQMAQRAREERAGISRYTGNDGEVSADVRERDEIRDQ
RHRERARDRNLARAAPDKRSKLQKERERDISEQIALGLPAKTQFSGEGQFDQRLFNTSKG
MDSGYGDDEAYNVYDKPWREANSMASHLYRPSKQIDQDIYGGDLDKIVNTSRFVPDKEFS
GTDRSGKNARQGPVQFEKEDDIFQLDKFLDTAKTGSKRKDESSSSKSDHSEKKRRRD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g2987.t1 | Coils | Coil | Coil | 293 | 336 | - |
| 6 | g2987.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 312 | 388 | - |
| 8 | g2987.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 312 | 339 | - |
| 7 | g2987.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 346 | 388 | - |
| 5 | g2987.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 472 | 501 | - |
| 4 | g2987.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 513 | 531 | - |
| 9 | g2987.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 513 | 537 | - |
| 2 | g2987.t1 | PANTHER | PTHR12096 | NUCLEAR PROTEIN SKIP-RELATED | 1 | 527 | 6.9E-228 |
| 3 | g2987.t1 | PANTHER | PTHR12096:SF0 | SNW DOMAIN-CONTAINING PROTEIN 1 | 1 | 527 | 6.9E-228 |
| 1 | g2987.t1 | Pfam | PF02731 | SKIP/SNW domain | 174 | 334 | 1.7E-71 |
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:0005681 | spliceosomal complex | CC |
| GO:0000398 | mRNA splicing, via spliceosome | BP |
KEGG
Orthology
- This transcript has been annotated with K06063 (SNW domain-containing protein 1)
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.
