General information for g11999.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein deltex.
Parent gene
- The parent gene g11999 is located on chr_1: 20246337..20247833 (- 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_1 | g11999 | g11999.t2 | TTS | g11999.t2 | 20245748 | 20245748 |
| chr_1 | g11999 | g11999.t2 | isoform | g11999.t2 | 20246337 | 20247833 |
| chr_1 | g11999 | g11999.t2 | exon | g11999.t2.exon1 | 20246337 | 20247833 |
| chr_1 | g11999 | g11999.t2 | cds | g11999.t2.CDS1 | 20246337 | 20247833 |
| chr_1 | g11999 | g11999.t2 | TSS | g11999.t2 | 20248218 | 20248218 |
Sequences
>g11999.t2 Gene=g11999 Length=1497
ATGACTTCCAATAATTGCGTTGTCGTTGTGTGGGAAGTTGAATCGATATTATTGAAAAAG
TATATCCCATACTCGTCTTCCGTTTCGCAGCATCTTGAACGGGCGTATGCGAAAAAATTA
ACGCAAGTCTTTCTTGGTGATTCTGATGCAAGTCTTAATGAGTATTATGTAAATTTACGG
ACAATGAAACAATGCTCAGAGCAACCAGATGCTGAACATCCAATTGTTAATGTTCGCAGA
CAATTTTACAATCCATCGAGTCCTGCGGGCAAAGGTATACGATGGGAATATGCAGGAAAT
TCCACGAGTGAATGGCATCAATATGATCTCGAGCATCAGTGTATAATTGAGGATGCGTGG
ACTAATGGCAATCAACAAATAGATCTTTCTTTATCCTATATTCATATGCCATACATCATT
GACTTTTGCAATATGACACAAACACGTAAGCCAAGTGGTCCGATAAGGCAAATACGTCGA
GTATCACAAGCACCATATCCACTTACAAAACTCCCAAGTCCAATGAATTCACAACAACAG
CAGCAGCAAGCAATATTAAATTCAAAACAACTAACAATGTCCCACGGAACAGGCCTCAAT
GCATCTCGATTATCAATCAACACCAGTCGTAGTCGTCGCAATTATCTTCATCATCAGCAA
ATGCTCTCAACGTCTGCACCTCGATTAAGCAATTATGGTGGCGATACAATTTCACAATCA
GGAAGTACAAGATCGGCACCATCAAATCATGTAACTGGAATTCCGCCAAGCGGTAAACAG
TCAAATAAAATGCAATCATCAAAACCACCAAAACCTACAAAATCAAACAATTCAGAATCA
ACAACAACATCGCCAACGAATCTCGCAAGACAAATTCTCAATAATCTCAATATTTTCTCG
CATCATCATCATCATAATGATAAAAATGCAAATGAATCATCAACAAATCATAAGAAACAT
TTTATTTTAAGTCACAACAGTAATACTGGCCATAAAATGTCAAAGAAAGCACTGTGCAAG
AATTTACACAGTAGCACCTCAACACTTGATATGGAAACTTTGAGTATAAATTCAAGGCGA
CCGAGTGTTGATACCATATCGACTTATTTGAGTAATGGTAGTAAGGGAAGTCGTAGTGGA
TCAGTACGTGGCAAACCCAGTTATGGCTCAGTTTCTGATCTCTTAAATTGTTCATTAAGC
AGCGAAAATGATGATGTATTTCTGTCAAGCCATAGTAGTATATCAAGTAGTATGAGCATG
AATATGATAATTAAAGGCAGCATAGTTGGTGTTGATTCAAGCAGTGAACAGATCTCTAAA
TTTGTAAGTGTTGTGAATGATATACCACAATCAAAGCCATGTCCAATCTGTTTGAATGAA
CTTCATCGCGATAATAGTGCCAAAAATCCAATTGTGTCATTATCGAGATGTCAGCATTTG
ATGCACCTTAATTGCCTTAATGAATTGATTTTAAGTCAAAAAAGTGATTTACAAAAG
>g11999.t2 Gene=g11999 Length=499
MTSNNCVVVVWEVESILLKKYIPYSSSVSQHLERAYAKKLTQVFLGDSDASLNEYYVNLR
TMKQCSEQPDAEHPIVNVRRQFYNPSSPAGKGIRWEYAGNSTSEWHQYDLEHQCIIEDAW
TNGNQQIDLSLSYIHMPYIIDFCNMTQTRKPSGPIRQIRRVSQAPYPLTKLPSPMNSQQQ
QQQAILNSKQLTMSHGTGLNASRLSINTSRSRRNYLHHQQMLSTSAPRLSNYGGDTISQS
GSTRSAPSNHVTGIPPSGKQSNKMQSSKPPKPTKSNNSESTTTSPTNLARQILNNLNIFS
HHHHHNDKNANESSTNHKKHFILSHNSNTGHKMSKKALCKNLHSSTSTLDMETLSINSRR
PSVDTISTYLSNGSKGSRSGSVRGKPSYGSVSDLLNCSLSSENDDVFLSSHSSISSSMSM
NMIIKGSIVGVDSSSEQISKFVSVVNDIPQSKPCPICLNELHRDNSAKNPIVSLSRCQHL
MHLNCLNELILSQKSDLQK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g11999.t2 | Gene3D | G3DSA:3.30.720.50 | - | 8 | 168 | 1.2E-53 |
| 12 | g11999.t2 | Gene3D | G3DSA:3.30.720.50 | - | 11 | 80 | 1.2E-53 |
| 13 | g11999.t2 | Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain | 434 | 499 | 8.5E-9 |
| 10 | g11999.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 237 | 285 | - |
| 3 | g11999.t2 | PANTHER | PTHR12622:SF5 | E3 UBIQUITIN-PROTEIN LIGASE DTX4 | 7 | 489 | 6.0E-27 |
| 4 | g11999.t2 | PANTHER | PTHR12622 | DELTEX-RELATED | 7 | 489 | 6.0E-27 |
| 2 | g11999.t2 | Pfam | PF02825 | WWE domain | 9 | 80 | 1.6E-10 |
| 1 | g11999.t2 | Pfam | PF02825 | WWE domain | 95 | 160 | 8.4E-15 |
| 14 | g11999.t2 | ProSiteProfiles | PS50918 | WWE domain profile. | 1 | 80 | 10.63 |
| 15 | g11999.t2 | ProSiteProfiles | PS50918 | WWE domain profile. | 81 | 160 | 21.238 |
| 9 | g11999.t2 | SMART | SM00678 | deltex | 6 | 88 | 8.2E-12 |
| 8 | g11999.t2 | SMART | SM00678 | deltex | 90 | 168 | 7.5E-22 |
| 7 | g11999.t2 | SUPERFAMILY | SSF117839 | WWE domain | 8 | 92 | 6.67E-15 |
| 6 | g11999.t2 | SUPERFAMILY | SSF117839 | WWE domain | 90 | 171 | 1.26E-23 |
| 5 | g11999.t2 | SUPERFAMILY | SSF57850 | RING/U-box | 448 | 495 | 2.3E-7 |
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:0016567 | protein ubiquitination | BP |
| GO:0008270 | zinc ion binding | MF |
| GO:0007219 | Notch signaling pathway | BP |
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.
