DreINT0119310 @ danRer10
Intron Retention
Gene
ENSDARG00000006288 | prdm5
Description
PR domain containing 5 [Source:ZFIN;Acc:ZDB-GENE-040708-1]
Coordinates
chr23:2011576-2015200:-
Coord C1 exon
chr23:2015026-2015200
Coord A exon
chr23:2011754-2015025
Coord C2 exon
chr23:2011576-2011753
Length
3272 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
GTGTGTGTGTGTGTGTGTAGAGC
3' ss Score
7.89
Exon sequences
Seq C1 exon
GATGGAGAGAATATCTTTTATCTGGCGGTTGATGACATCGAGACGGACACGGAGCTGCTGATTGGTTACCTGGACAGTGATATGGAGGAGGAAGAGGAGGATCTGGAGGAAGAGCAGGACATCAAAGATGAAGACGAGAACAGTAAAGACAGCAAACAACTCAGTGCAGACACAG
Seq A exon
GTGTGTGTTCAGTGGCTCTCTAAAGGCCTAGTTCTCACTACATGACTTAAAACATAGGCAGATCACTGTGCTGTTCAGACTACCTGACTTGATTTATTCATTCATTCAGTTTCTTTTCGGCTTAGTCCCTTTATTAATCCAGGGTCACCACAGTGGAATGAACCGCCAACTTATCCAGCACGTTTTTATGCAGCGGGTACTCTTCCAGCCGCAACCCATCTCTGGGAAACATCCACACACACTCATTCACACTCATACACTACGGACAATTTTGCTTAGGAAATTAACCTAAAAATAAACGAAAGACACTTGGCAAATGATCATTTTGACACCAGGCATGATCAAACTGTCTATACTAGATGTTGAATTGGACATAGGTTGACTCATTTGTATATACTACTTAATGAAGCACCTCCTAAGTGTAATTACTGCCAGGCTGCTCCTACCATAAAACATATTTTGTTGGATTGTGGAAGTTTGAATACCATCACAGGGCTCAACAATAAGGACTGTCCAGTGGCTAGCGTGTAAGACGCTCGAGACAGTAGACAGGATTGTCACTGGCCCCTATTGGTCAGTAAGGATGAGCACCTTATTTTTTTTTCGTAACCTGGTTACAACTTTGTCATCAGTTTGTCTAGTCATTTTTACAAAAATAATTTAGAATTGCAATAAAATACCAGCACATTTTCCATACTGCTCGCTTGCATAAAATCTTGAATTTTAAATTTTACATTTATTAACATTTTTAAAATGTTTATATTCTAGATTCACAGACATAATTTTGCCACATAATTTAAAATATGTGACTAAGAAATAGCTATAAACTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGGGGGGGCCAGTGAAAACTTCGGCAGGGCAAGTAAAAATCTCAACCACTGGCCTGATCGGCCCAGTAGAAAAAAGCCTTAGCGTTGAACCCTGCATCAGACATTTTTTTTTTAAGGAGATAACTTTGGACATTTTTAAAAAGGTCCCACCAGGGAAAACCTTTAATTATTTATCAAAAATTGAAATGAAATATCATATTTAACTTTTATTTAAGTTTTTTAAGTTTTATTTAATTCTATCCTATATATTTGTCTGAGTAACTTTTTATTGTAATACGAATTCGTTTTTATCATGTTTAATCACATTGTATCCATTTTGCCACGAAATAGCCATAAGATACTGAAGTGGCAATAAAGAAATAATAAATAAACTAGATATTAAAGTTTGAGGACAAACTTTATGGTGGCTTGAAAAGCCGAATCTGAAAGTTTGAAGTGGTTTTAAAGTGTAAATAGCATGTTAGTATGATTTTAGCTTGAGTTAACATATTACTAGCATGAATTAGCATGTTAGTAGCATGATTCTTACATGAATTAGCATGTTGTTAGCATGATTCTAGCATGAATTAGCATGTTACTAGCATGATTCTAGCATGAATTAGCATGTTGTTAGCATAATTCTTACATGAATTAGCATGTTGTTAGCATGATTCTAGCATGAATTAGCATGTTGTTAGCATGATTCTAGCATGAATTAGCATGTTACTAGCATGATTCTAGCATGAATTAGCATGTTGTTAGCATAATTCTAGCATGAATTAGCATGTTACTAGCATGATTCTAGCATGAATTAGCATGTTGTAAGCATGATTCTAGCATGAATTAGCATTTTACTAGGCGGTTGCTAGGGTGTTTTAAGTGGTTGCCCTACTCCTCCTCCATTCCTTGATAGGTGGTAAAGTGGCCCAGTGGTTAGCACCATTGCCTCACAGCAATCGTCACTGGTTCCAGTCCTTATCAAGCCAGCCGACGTTTCGGTGCCGAGTTTACACGTTCTCCTCATGCTCACAGTGGTTTCCCCCGGGTTCCCCAGTTTCCTCCCACTGTCCAAAAACATGAACTTAATTGACTAAACCAAATCGGCACCATAGATTTGCTCCTAGTAAGTAGTTATCTCTTAAGCGCAATCACTATCTGTTCATTAGCTACTACAGCAGGGGCGTTCTCCAGATCTACTTGAGCTCAAACTCCCATCTCGCCTTGCAAATAGGAGGGAGCCCCAGGCTTGAGGATCTTATGAACTCAGGGCTCTCTCCTAGGACAGCATGCCAAACACACTTATTATTAATCATCAGCTAAGTGTGAACTCTTGAAAGTTTGTTTCAAATAATTCGCTTCATAAATGGCAGAAAAGTGTTACAATGTGCTAGTTTTTAACCTTGGACTGGACCAGAGGAAATGTACTACACGTGTGAAAGCACCGAAGGGATTTTTGCTTCTAAAAACTCAAGGCCCAATTGTTTACCATGGTGTAAAAAATCATGAAGGTATCTGGAGACAACCACTGAGCATCTGGAAACAGAAACTTGCAAAGGTTCTCCCACCTCTGAGTTCTGATTGGTGCACTGCTGTGGAACCGACAGCAATGAGCGGCGCTGCCTCTGAAAGGTCATTATTTGCAAAACTCATATAGTATAGACATGCATGCACACACATGCGCACATATACTCATACATATACACACAAACATATGCACGCGCTTGCATGCACACACAAATGCACACACACACATAGGTGCATACGCACACAGGAGCACACGCACAAGCATATGCACACATACACACACATATGCATGTACAGACACATACACGCATACATATACACACACATATGCATGCGCTTGCATGCACACACACACACACATATGCGCATGTGCACACATGAGCATACACACGCTTACACACAAACATACACAAATGCACACACACACACAAACATTTGCACATACACACACATGCGCATATACATGCACACACATTCATGCACACAAACTTATGCACACATTTGCATGCACACACTCAAACGCGCAAACACACACATATGCGCATACGCACACATATGCATGCACATACAAACATATACACACGCTTACACGCAAGCATATGCACACATACATTACACACACATGCGCATATATATAGACTGACATGCATGCACACACAACTGTAAATTCACATATGCACACACACATAGGCACACACTTGCATGCACAAACACAAACGTGCGCGCACACACACACATATACACACATAAGCACACACACACAAACTTGCAAAGGTTGTCCCACCTCCGAGTTCTTCTGATTGGTGCACTGCTGTGGAACTGACAGCAATGAGCGGCGCTGCCTCGGAAAGTTCATTATTTGCAAAGCTCATATAGTTCACCAATGTGTGTGTGTGTGTGTGTGTGTGTGTAG
Seq C2 exon
AGCTGATGATCAAAAAGGAGGATTACCCATGTCTGCTGTGCGAGAGCAGCTTCCCCAGTGAAGACGTGCTAGCAGAGCATCTCCAGAGCCTCCACAACAGAGGAAGTGCTGAAGACAAAGAGTTTAAGTGTCGATCCTGCGGAAAAGAGTTTCCCGTCAGACAAGCCCTGCAGCGCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000006288:ENSDART00000127443:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.627 A=NA C2=0.067
Domain overlap (PFAM):
C1:
PF0389611=TRAP_alpha=FE(41.7=100)
A:
NA
C2:
PF0389611=TRAP_alpha=FE(42.4=100),PF138941=zf-C2H2_4=WD(100=40.0),PF097235=Zn-ribbon_8=PU(59.4=31.7),PF0009621=zf-C2H2=PU(78.3=30.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]