DreINT0038139 @ danRer10
Intron Retention
Gene
ENSDARG00000078904 | brd4
Description
bromodomain containing 4 [Source:ZFIN;Acc:ZDB-GENE-030131-267]
Coordinates
chr3:52951538-52957069:+
Coord C1 exon
chr3:52951538-52951918
Coord A exon
chr3:52951919-52956346
Coord C2 exon
chr3:52956347-52957069
Length
4428 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TCTCTTCTCTTGCTCAACAGCCC
3' ss Score
9.81
Exon sequences
Seq C1 exon
GGATGGCTTCTAAGCCAAAGAAGAGAGGGAGAGGTGAAGGAAAGAAGGCTCATCACCAGACCACGGCTCCAGGCATGCCTCTGCCGCAGGTCCCCCTTCAACCCCAGACCCCTGCTCTGCAACCCAGCATTCAGCTGAAGCAGCAGCAGCCGCAGCATCCCTCTCCAGCTGCTTACATGCCACCTCCCGTCACGGCTCTGGAGCCCTCGCAGCTCCTGGAAAACCCCTTTGACCCTCTGGCTCACTTCATGCACCTTCCCCACCACGCAAACGACTCGTCCTCTCCTGCTCCACCTCACCTCAACGCTCACCCTCCAGGAGGCCCAGTGTCACCTGAGACGCATCCGTTCCTCAACCAGCACCCCATCCTTCCATCCCCAG
Seq A exon
GTGAGTGGACAACTGCTGTGTATTACTGCAAGCTACTGTCCAGAACAGGTTTATTGTAGGGCTGCACAATATATCGTTTTAGATACAAATTATCACAATGTGCGAATCTGCAGTAGTTACATCGCAGTGTCTGCAATGATGAATTGGCATTAAAATTATAATTTAAATTGTCTGTGCATATGAGATGATCATATTTGTAGTTTAACAAAGATTAATTGTGTTTATACAAGTAAGTCAACATTTGAAGTGGAAAAAAATTGAGCAGAACAATGGGTGGTTTTGAGTAGTTTCAGGACATCTTTAATTTTTGTGGTGTTTTGATCCACTTCAGATGTTGACTATTTTGTATTCAACAATGTTGGGCAAGCTTAACTACATTTCTCAGTACTGTGGCGGTAGCGTCACTACTTTTTAAATTAAAAAGCTTTTCAGTCGTGAAGCTATTATTTTACTCAAGTAGGGCAGTAGCATCCACACAAGTTATATTTACCGATCACGAATCAATAAGTGACAGCACCAACATTCATGAAGCTGTGAAGGCCGGTGTCTAGCCAATGACAGTAAATCCATATGATGGTGAGAATGATGACTTCTACCCTTTTTTACGGTGGCCGACAGCAAACTTTTTGGTGTGTTTACGTCGCCATCCAATTAGGCTTACACAAGAAATTTGCTTGATGGAAAGATGACTAAAAGAGAGGAGATAAATATTTATTTATACATGTATACACACACACACACACACACACACACACACACACACACACATATATATATATATATATATATATATATATATGTGTGTGTGTGTGTGTGTGTATATATATATATATATATATATATATATATATATACATATATGTAGTTACTAATGATACTATGTAGTGTAATTTATTACTGAAGAGGTCTAACTATATATACAATCTAATTTTTATTACTAATTATTTACCTTTACTTTAAATTACTATAGTATTTTAAATGTGGTTAACACCTGGTTTTCTTGGTTTTTCTTTTCAGCATATTATTTGCAGTAAATAACTGAGCTGCACATTTATGCCTCATGTTTCATTAACAGTTTCATTCATCACTAAGATATGATTGACATGGATTTAAGTTGCTTTTTAAGTTGCAATTTTATTTATTGCTTTACCTCAATACTGTTATGCTGTGTTCACACCAGACACGGAACGCGCAGATAAATTGCGCAATTCACGCGTAAATTGTCGCGTGAACATTTGAGTTTACTCGCTTTATTCGCGCATCAAACCCTGCTTCACTTTAAAACAGACGCGGATTCATGTGATGGGCAGGGTTTTTGTTTTCCTCACTTAATTTTGTTTTCCTTACATATATATATTTGCTTGTTAGTTTAGATTAGTGTTGATTTCAAAAGCAATAAATCTGTTTATATAAAACTTGTAGTAATGGTGCTCATAATTGGTGGGTGCGACTAAATTTTGTCTGGTACGCCTACATTTTTAAAGTTGGGAGCACCAACGCTACCAAGCAAAAAAGCCCTGTGTATATATATATAACATATATGGATAGATAGATGGATGTATATATAGATAGCAGAAATACAAAATATCGCTGTCATTTTTTGCCAATATCATACAGACCTAGTTTGATGCATCATATTTTCTGCTTCATATGTAGAGCAATATGACTTGCTTGTGGTTTTGAGGTTCTATTTTAATACATTCAGAATTATGCAAGTACGTTAAATTAAACTTTAACTCTTCATTTAGCGTTTAGCATTCATTTAGCAGCTACTTTTATCCAAAGCAACTTACAATCGCCTTAAGGCGATTCATTTTAAAGGGACAGTTCACCTAAAAATGAAAATTCTATCATCATTTACTCACTTGTTCAATGCATTATTCAAAATCACTTCTTTTTTGTTTGTGTATTTCTGTTTTAAGTTGGAGTAATATGAAGTGAAATTTCAAGAATTGTTCAAGATTTTTCAGGGGTTATAAACACAAGCAAATAGAAGAGTGAAGCAGACAGTTAAATTTTAATTTACAGTTTATACCGAAGGTCACTGTATTTATTACTAATGCCAAGTCTTAATAAATTTAAGTGAAACAAAAATGTATAGTAATGTGGGAATGTGTTATATATTTTAAATACAATTGGCCATTATTTCTGTTGTTTTCATCCATTGACTTCTATAAGAGGAAAAAAATTACTATGGAAGTCGTTAGGTGCCAGCAATCTGTTCAACAGAAGAAAGAAACTTAAAGGTTTAAACATCATGAGGGGGAAATAAATAAGGGCATGTTTGTTTTTGGGTGAACTATCCCTTTAAGAAGGCAAGTGTGAAAAGTAGTAGTGATATGAACATTTTAGGCATTGTTCAATATTGTTTAAGCATTATAAACACAAATAAAGGAAGGAAGAGGACATAAGCTGCATTTATTACTAATGCCTTTATTATATGAAGTTTGAATGTTACTTGTTTTGCGTGATCTTCATTCACAACTATTGTTTTTTGTTTGAAACAAATTTTATTTGGTATAATTTTTTTTAGTTATTTACAAAACAAACAAGAAGTAAAAAAGTTAAAGTGCACGCGTTCAGGGCCAAAACAAAACCACAGCCACATGTATTGTCAGATTTTGGCTACTTTTGTCATTATGAATAGTGTTTGTTTATTTATTTATACGCGAAATTGGCATGGGTTAAATAAAAACTTTACTTGAGCATACAGCAGCAGCTAACAACAACGTTGATACGCAAATAGTATTCGATCCACTACAAATTCACACACATATACTATATTTCATTTATAACACAGCAAACTTGCAGATTTCTGCACAGGCAGATCATCTTTGAAGCAGAGTATTTGTTCAGTGTTAGATGCAGTCTGTCATTGAATAAATAGTTTGAAGCAGTGATTTTTTTTTTTTTAATTCCTTGATTAATTCCAAAAGAGTAACGTCTGATTAAATCAGCTGCTTTGATTGATTTAATGAATCATTTACTTGCTGCTACCTCCTGAACCAGCCAGAAAAAACACACTCCGCAAAAATCAATTACTGTCGTTATGAGAGAAAAAAAAATATTTGTCAGCCACACACACTGCTACTTCTGATTGGAAATATCATGCATTTTATTTTATGCATCATTTTGTGTACCTTTAACTCCAGGGTGTCCAAACTCAGTCCTGAAGGGCCGATGTCCTGCTGAGTTTAGCTCCAACTTGCTTCAACACACCTGCCTTGAAATTTATGTATGGCTTTTTTACAATTTCAAGAGCAAAGAGAATGGACTTGTGTTCTTGTGAAGACCGTTCTTGTCTGGTCACCTCGGAAGAACGAACTCGGGATACTGTGAGAACACAGAACACGTCCTGCGAGAAATGGGATGCTGCGTTCTACTCTTAATGCGTTTACTTTCGTCGTTTCATTTAGGGAAACTTCTGAGAAGTTTTATCTCTGAACTTTATTAAAAAACACACACATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATAATGTTGTGCTTCACACCTCCCTTAACCCATCACAATGACTTCTGGGACTTCTAGAGCAAGTTTAGTGTTCAAGTCTGCATCACTGCATCCTCGATATCAAGAACACACACATCCGGGAACTTTTTCAGCCGTCCTCCGTTCTCAGGTCTTAGGTTTTTTGAACCAAAAAAAATCATCATAAACCTTATTTTTGAACCTTAGGTTCTTCTGAACTGACGTTGGAGGTTGAGGATGATGTTACACGAACACATGTTGAGAAACAGCCTATATCTAGCAGGAGCTTGATTAGCTGGTTCAGGTGTGTTTAATAAGGGTTGGAGCTAAACTTTTCAAGACACCGGCCCTCCAGGACCAAGTTTTGACATCCCTGTTTAACTAAAAGACTGTGGGCTTCTATGACCATTTTTTGTCAAATAAGTTTTATTAAAGAGAAAATTTCAGAAACAAAAGGGTTCTCTGTTTTACATATTGTGTCCACATATAACATAGGCAAAGGAAAAAGACAAAAAAACATAAGGAAAAACAATATGTAAATCATAATAAGAAATAAAAATTCACCCACATAACAAGCCAAATTGTTTATAAAGGCCTGTTTGAACAACTGAGTTCAAAGCATATTAAAACATTACAGACTACAGACATGATGCATTATTCCACACGGTTTTTATTTCAAGCAAACAGATAAAAAAAAAAAGCCAAATTTTGTTAAATTGTTTGAGTTTTCCTTTCTAATAGTATCTAGTTGGCTCCAAATGTTACAGCTGATTTCTCCAAGCCACAGTTTACATGTAGGAGTTACTTTTTCTTTTTTTCCAATACAGTCTACCATGACCATTTAACTTTGTTTTTTTTCTCTCCTTTCTCTCTTCTCTTGCTCAACAG
Seq C2 exon
CCCTGCACAACGCTTTGCCCCAACAGCCTTCACGGCCCAGTAACAGGGCAGCCCCACTACCTCCTAAACCTCTGCAGCAAAGCACGTCCCAACAGCAGCCACCACCCCAGCAGACCCTGGTGCCCCCACAGCAGCTTCAGCCGCAGCAGCAGCAGCCTGCTCCACCCCAGCAGCAGCACCTCCCTCATCACCCGCTACACGCCCCACAGCAGATGCGCCCAAGGCCGCTATCCCCTCCTACGCTCACACCCCAAGGCCTGCTCTCCTCTCAGCCCCCTCAGATGCTGCTGGAGGATGACGAGGAGCCTGTGCCCTCCATGTCCCTGCCCATGTACTTGCAGCACCTACAGCCCAACCGACTACAGGCAACGCCGACATCACTGATGCAGTCGCTGCAGAGCAGGCCTCAGCCGCCAGGACAGCCGTCTCTGCTGCAGTCGGTGCAGGTTCAATCTCACTTGCCCCCTCCGCAGCTTCCCGTTCAGACTCAAGTGCAGCCGCAGCAGCCAGCGCCACACCAGCCCTCGCCACAGCTCTCACAGCACCAGGCCAGACACATGCAGCAGCTCGGCTTCCCTCAAGGCCCGCTGCAGACCGCACAGACGCAGCCCGGTCAACACAAAGTGTCCATGCCCTCCACAAAAGCACAGCAGATCATCCAGCAGCAGCAGGCCACGCAGCATCACTCGCCACGCCAACACAAAGCTGACTCCTACAACTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078904:ENSDART00000115117:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Chicken
(galGal3)
No conservation detected
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]