DreINT0146769 @ danRer10
Intron Retention
Gene
ENSDARG00000096941 | si:dkey-77f5.8
Description
si:dkey-77f5.8 [Source:ZFIN;Acc:ZDB-GENE-131120-149]
Coordinates
chr15:1046747-1049718:+
Coord C1 exon
chr15:1046747-1047589
Coord A exon
chr15:1047590-1048911
Coord C2 exon
chr15:1048912-1049718
Length
1322 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGA
5' ss Score
10.1
3' ss Seq
CTGTCTTTTCTTCTTTCTAGATC
3' ss Score
12.51
Exon sequences
Seq C1 exon
ACCCGGTTGTGCTGAAGGAGGAGACTGAAGAGATCGTTAATCTTGATCAGCAGGAAAACCTGAAAGTTTACCGGTGGATTCACACTGGAGAGAAACCTCACACTTGCTCTCACTGTGGAAAGATTTTTGTTCATAAAAGGTCTCTTGATGCCCACATGGAAACTCACACTAGAGTGAAGCGTTTTACCTGCCATACATGTGGAGTAAGGTTCAGTCAACGAGGACACTTCACATCCCACATGTTGACTCACTCCGGAGAGAAACCTTTCGCCTGCCTTCAGTGTGGAAGGAGTTTTGCTGAAAATAAAAACCTGAGAGCCCACATGAGGATTCACACCGGAGAGAGACCATTTACCTGCCATACGTGTGGAAAGAGTTTCACTCAACAGGGACACTTTGCATCCCACATGTTGACCCACTCCGGACAGAAACCTTTCGCCTGCCTTCAGTGTGGAAAGAGTTTCAGTGAAAAAAAAAACTTGAAAGCCCACATGAGGATTCACACCGGAGAGAAGCCTTTTACCTGTCATACGTGTGGAAAGAGGTTTACTCAACAAGGACACTTCACATCCCACATGAGGACTCACTCCGGAGAGAAACCTTTCGTCTGCCATCAGTGTGGAAGGAGTTTCGTGAGCAAGGAGAACATGAAGGTGCACATGAGGATTCACACCGGAGAGAAGCCTTTCAGCTGTCAACACTGTGGAAGGCGTTTCACTCAGAAAGCAGCTCTTGAAGGCCACCTGACCATTCACAGCAGAAAGATGCTCTACACCTGCCAAATATGTAGAGTGAACTACAAAACTAAACATGGCTTTAGATGTCACATGGACATTCACACCG
Seq A exon
GTAAGAAGTTGTTTGCGTCCTGTTCACGCCTCGTATTGAGATCAAATTCACATTTTATTTGTCACATACAGAGTGAAATGTGTACACAGCTACTTGTGACCTTATAAAACCTTAAAAATAATAACATTTACACTTAGTCATTTAACAGATGCTTTTGTCCAAAGTGACTTACAATTGAGGAGGTATTCAGGGATTCAACAAGAAAAGGCAACACACACTAGAAGGGCTAGTTATACCGGAGGGTCAACTGTTCTCTGTATCGTTTAAGGGTAGCAGGGGGGAACGCGCGCGACGTACCTGAAGAGCTAGTAGGAGAGTGCAGGAAGTTTCGGTAGTCTCCTGCAAATGCACAGACACTCCCGTATGCCCGCAAACGAGTGAGAATCTCCCGGAAATCGCGCGTCTCCCTCCCGGTCCTCAAATACGCAGCCCACCCTTCTCACCCCTCCCCACCGCACCCCTCCTTGCTCTTCAGACACTCCGTGCACACCTTGTCAAACCACCACCCCCAACAGCTGAGTGAGACTCTGCAAAATAAACCGTGAAACTCTGACCAATGTGAGGAGAGTTTACTCACACGTGACTTGTTTTAGCTCTTTTGGTCCGGTTAGGGTGCTTTCACACCTACACTTTTGTTTCGGAACGCATCTCGTTTGCCCAGTTAGCGCGGTTCGTTTGGCATATGTGAACAGGGCAATCGCGTTCTGTTCCGCGCCAAAGTAATCGCTCCGAGATGGCTTGAATGAGGTGGTCTCGGCTCGATTGAAACGAACCCTGGAGCGGTTCAGTTGCAGTGAGAAAGCGATCCGATCCGAGCGCGGTTATATCACAGTGTTTATGGATATGTAATAGGCTTACGGCTATATGAAGAGAGAATTATGAGTAGGGCGGGAAGTTTCGCGAGTCTCCGGATGCCCGCAAACGAGTGATGATCTCCCGGTAATCTCGCGTCTCCCTCCCGGTCCTCAAATAGGCATCATCGTGCACCCTTCTCACCCCTCCCCACCGCATCTCTCCTCAGACACGTCGCGCGCGCACCCTGTCAATCACCACCAAACCAGCACCTCTCCTGACAGCTGAGCGGGACGCTGCAAAATAAACCCTGACACTCTGACCAATGTGAGGAGAGTTTACTCACACATGACTTGTTTTAGCTCTTTTGGTCCGATTAGAAACTTTGCCGTGTGAAAGCGAACCACTCCAAGAGCAAAGAGCAACAATGTAACATGTAATCCCTGTTTCGGAACAACTGAATCAATTGACAGGTGTGAAAGCACCCTAAAAGAAAACCACAATGTTTAACTGTCTTTTCTTCTTTCTAG
Seq C2 exon
ATCTGATTGCGCTGAAGGAAGAGTTTGGAGAAAACAAGAAGCCTTACACGTGCTCTCATTGCGGAAAGAGTTTTCATTATAAAGCTTCTGTTAAACGCCATGAAGTGATTCACACTGGAGAGAAGCCTTACGTCTGTCCACAGTGTGGAAAAGGTTTCACGCAAAAATTTGTGCTTAAAATCCACCAGAGTGTCCACACTGGAGTAAAGCCCTACTCGTGCACGGAGTGTGGGAAAGGTTTTACAAGTACAAGCGCTCTGAATTGCCACATGAGCGTCCACACTGGAGAGAAGCCGTACGCTTGCCCTCAATGTGGGAAGAGATTTTCACAAAAAAGATCTCTGTTTAACCACATATCGGTTCATATCGGAGAGAAGCCTCACACCTGTAAAACAAGTAGAGCGAGCCTGTCAACAAAACAAAATCTTAGACGTCACTTGATCATTCACACCAATGAGAGGCCGTTTGCTTGTTCTCACTGTGAAAAGAGCTTCAGACACAACAGGTCTCTTACTAGGCACAAGAAGGTTCACTTAGAAATGAAGGATTAAATACTAAGTGAGAATCTACAAGAGAGAGAAACCAATCACCTGCAAACGAAAAGAGCTTCACAAACGTTATCTATAACCTGAACAATCACACTGGTGAGAGGACATTTATTCCCAATCCTTCCCCTTCTCCAGTTTTTGCATGCTCAGTTGAAGAGTTCAGAGTGTCCAGATTCTCTTCATCTTGAAGAAGTAATGCCCAATTCACACAGGGCTTTAGTGTCAATGCTTGACAGAGGGCGTGTCTGAAGTTGGGGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000096941:ENSDART00000157310:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.077 A=NA C2=0.115
Domain overlap (PFAM):
C1:
PF0403211=Rpr2=PD(97.1=24.1),PF134651=zf-H2C2_2=WD(100=9.2),PF127282=HTH_17=WD(100=12.8),PF0013017=C1_1=WD(100=19.5),PF134651=zf-H2C2_2=WD(100=9.2),PF134651=zf-H2C2_2=WD(100=9.2),PF134651=zf-H2C2_2=WD(100=9.2),PF134651=zf-H2C2_2=WD(100=9.2),PF134651=zf-H2C2_2=WD(100=9.2),PF134651=zf-H2C2_2=WD(100=9.2),PF134651=zf-H2C2_2=WD(100=9.2),PF134651=zf-H2C2_2=PU(27.0=3.5)
A:
NA
C2:
PF134651=zf-H2C2_2=PD(70.3=14.1),PF134651=zf-H2C2_2=WD(100=14.1),PF134651=zf-H2C2_2=WD(100=14.1),PF134651=zf-H2C2_2=WD(100=14.1),PF134651=zf-H2C2_2=WD(100=12.5),PF134651=zf-H2C2_2=WD(100=14.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACTGTGGAAGGCGTTTCACT
R:
AGGGCTTTACTCCAGTGTGGA
Band lengths:
358-1680
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]