DreINT0062602 @ danRer10
Intron Retention
Gene
ENSDARG00000053864 | elmsan1b
Description
ELM2 and Myb/SANT-like domain containing 1b [Source:ZFIN;Acc:ZDB-GENE-131121-13]
Coordinates
chr17:37368800-37372657:+
Coord C1 exon
chr17:37368800-37370618
Coord A exon
chr17:37370619-37372357
Coord C2 exon
chr17:37372358-37372657
Length
1739 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACT
5' ss Score
9.01
3' ss Seq
TCATCATGTTGTGTTGCCAGCAA
3' ss Score
4.49
Exon sequences
Seq C1 exon
GTTGTCTCTGATGAATGAGCAACAAGTTTCCCACCAACTTATCCGTACTTGCCATCCAAGGAGTTGAAGATTTGGCAGAGAAGAAAGCAAAAACAAAAGCAAATGGACATGTTTGAGCTACACCGCATTGAAACTGAAATTTCTGCACAAGATGTGCTGCAGTTTTGTATTTTAAAGTGTACCTGCATTGATACCATGTTAAGTAGGTTTGGATGACCATTAACTGTCACAAAACCGGTCGAGGGTTCTTTAAGGACGATACTCTAAGACTTTTTATTAAACCAGAGAACACCTTGGTGTGGTTTGGGGAATTGAACTCTTGTCTCCTCAGCTGCCCACTCCACCACTCCCCAGATCTAGATTCATGAAAGTCATGAGTTTGCAACCTCAACCGAAACCAAACGCAAAGAGAACAGGCAAACGTATCACTTTCTTTAACGATCAGGGTGTGGCAATGAAAGAAGCCTCTCAGCATACGGGGCCCTACTATGGCGTCGGGGTCCCACCTTCAGGGCCAGGCCATAATGACAGCGGAGGTGTGGAAAGCTTCAATCCAGAAGCATCACGCATGTACCATAATTCAGTTATTTTCAGTCCAGAGAAGGGTGATCAAAGCCGTGGGCATTATCAACAGACAATGCCCTTGAAGTGGACACATCAAGACCCATCTCTGCAGCCCCAACCAAGACCAAACAGTTGGTCACAGGGTACGACCGCTTGGCAACAGAACTTTGGTCCTTACCTGACACCTCAGGCTGCTTTTGCAAAACAAATGCACGAAGGTATATCAGTTCAACAACAGCAGCAGCAATCTGAGCCATCAGCTATTAGGACAACCGAAAAGCAGGCTAACATGACTGGAGAGACCTACAGGGATGCAACTAAACCTGTCCGGGGCATGGGGGAATGGGATCAGCAGCAAGCCTTTCAGCAGACACAAAAGCCTGGAATGTTAAATCCACAGCAGCACGGACAGTCCACCACTGGGAATTCTGTGCTGCAACCCTTTCAGTTAGCTTTTGGACAGCCCAAGCAGAACCTAGTAGCAGGTTACTATCAGGTAGTCCAGGGCAGTCGGACCTTACCAAATTTGAACTATAGTTCACAGACAAATTCTCAACATCAACTTCAGCAACTACAGCAACAGGAGCAACAAAAGTTAATGCTCCAACAGCGACAGCAACAGATAGAGCAGCAGATACGACAACAGCAGCAGCAGCAACAACAGGTACTTCAGCGTCAAAAACAGCAGCAACAAATACCACAGTCACTGGAGCAAGCACATCAATTAAAACAGACTCCACAACAGCATATGCAACAGATTCAGGCACAACTGGTGCAGCAGCAACAAAAATCGGAGCAATCTCATCAAAACCAACATGCATTGGGAGTTTACTCTGATGGCCAGCAGCCACATGCTCCTTTGCTTAATCAGCATCACCCCTCGTTATCAGGACAATCCCAGGAGACTACAGATCCTTCATCAACCCAGGCACAGGAATCGGTTCCCCAGCCTCCTGCAGCTGTTTCACAGCAAGCCATCGAAACCCAACAGCCTGGACCACGGAGATCCCGTCGGCTTTCAAAAGAGGGTGGAGGACCTGCCTCAGACAACCCATTTGTTATACCGTCTGATCTTCATGCTCAGGGTTCTCAGAACGGGGCTTCTGAGACCTCTATGGTGCAAGACATTCGGGCCGCTCCAACTGGTGTAATCCAGAGCACTCGGCGGAAGAGGAGAGTGTCACAAGAGGCCAACCTAGAAACCCTGGCTCAGAAGGCTTCAGAAAGAGAATCTCTTCCCTCACGTAATGTCAAG
Seq A exon
GTAACTGACGTTTCTTATTATAGAAACAAGCATTGACGTTATTTCCTGTTCGTTCATTGCTTTATAGTGAGAATGAAAAGTTGGTGTCTGTCGTAAGACAATGATTACCATTAGGCAAGTGAAGTTGACATGATGATAAAGTAGCACAGCAAGGATGCACTACTTCTTTTAAATATCTACAGGTTTTGCAGGTTTCTCAGTTAATGGGGAGTGTAAAGTTAGAAGAAGACAGACAGGCACTGACTGTCACCACTACGTCACATGATATCTTGAGCCAAACAAAGGTTTTTCCACACATCTGCAAACACTATCTCCTTACTGATTTCTCATACAAATACCAGCAAGTGCACCCCACCCTCAGTTCACAGATTCTCTTGAGGGCACATGAACACTGGTGCACATTTCCTTTTGTTGAACTCCACAATCATAGCTTAACTTATTTTAAGTAGTGTTATCACTTGTTTTGGAATGGAAGATTAGATTGAGATTTTATCTTTTTGTGGTAGATCTTGAATCCGTGGGCAAGTCTTAATGACTTGGTTTGTTCATTTATTTTTTTTCATTGCACAAGGAAAATTAGCACAATTAGCAATCTAGTTTGATGCAGTGTCTGTAGGCCATTCCGTGTAATGTATTCTGCTTTTCTTCTTGTTGCGTAAACTTCCTATAAAAAGGACAGCAGCACTCCCTTAAGACTTCCAACCGATGATAACAATGAAAGGGTGTGTATATATACTGTGATCTATAGGCTAGATAGTGTAGAGAACACACAGCATAGTTCAGTAAGGTGAATACAGTTCTAGCTTATTGAAAATAGAGGATACATAAGACATTAAGGTTTTTTTTTTTTGGTCGTCTGTTGATGATTGGTGTCAGTTCATGCCTGTAAAAATACCCTACGCCAAACACAGGCTGACAAACAGCCATAGCTCAAGGGTGAGTGAGCTGCAAGGGCTTGATGTACTAAGTTGAATACCTCAGTGGTGCCAGCAAGGCCGGAGTTCAGATAAGACAGGCCACATCCTCAGGGATTTCTAGACTTTCATGCAGCTTCCAGTTAGACGCACTGTAGTAATGACGTAGATTTGATTGCGTTTTTTCCACAACATATCAATAACGTTTTAAACATGTCAGCCCTTTTCTTTGCTCTAATCTTTAGCAATAAGGAGTGTAAAAAGGAATTGCTCTCACAATAAGGGAAATGAGGGTTTAGTGCTTTTCCCTGAACACTGTTATTATGACTAGAACTTTGTGTTAAAAAGGTGGTTTTGAAATGTACAGCCATTGTGAAATCACTAAGACTGACACTTTTGTATGGTCTTTGTAAGTTCCTGTTTTGTGGAGAAGTATGGATGCAGTTCAGTAAATCTAACATAATAGGAACCCCTTCTCCAATCATTAACATACCCACTGCAGAGTCTGGTTATATAGAAACAGCTCTTGTCCAGTGGGGGAATATCATTATGTGAAATGGATCTATATATCCACATGCAGCCTGTCTCTCGTCTGCAGGGCAAGTTGTCTCATCTTGTAGCAGAAATGAGGTCACAGTTAATTCATTAAGTTGTTTTTGAAAATAGCCCTGAACTAACCTCATTTCCTGTGATAATATATGTTATCAGCTTTTATTTTAATTCTGATTTCTCATGTATATCCTTTGTACATACTGAGGAGGGATGCCCTCTGCTGAGATTCAGGTCTTTTAACCATTAATTTAACTCATCATGTTGTGTTGCCAG
Seq C2 exon
CAAGAGCCACACAGGCCTTGGAGTCCGCCTGTTGTCCCGACAGGTCCTGGTCGAGGGGCAGCTGAGGTGGATCAGGTGAGTGCCAAGCGGCCCAGAGACGACAGCCTCATGCCATTGGTCATTCCAGTCTCTGTACCAGTGAGGCAGACTGACTCCTCATCCCCGGATCATGAGCAGGCTTCCCTCTCCGTTAGCTGGCCTTTGCGGCCTTCTGACATGAGCTGCTCCAATTACCAGCCCTCTGTGATTGTTACACGACGGCGCTCGCTGAGGAACTCCCCATCTGAGAGCACGGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000053864:ENSDART00000157122:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.909 A=NA C2=0.945
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATGGTGCAAGACATTCGGGC
R:
CAAAGGCCAGCTAACGGAGAG
Band lengths:
346-2085
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]