DreINT0152481 @ danRer10
Intron Retention
Gene
ENSDARG00000074739 | slitrk3b
Description
SLIT and NTRK-like family, member 3b [Source:ZFIN;Acc:ZDB-GENE-070912-352]
Coordinates
chr2:36833027-36837167:-
Coord C1 exon
chr2:36836798-36837167
Coord A exon
chr2:36835700-36836797
Coord C2 exon
chr2:36833027-36835699
Length
1098 bp
Sequences
Splice sites
5' ss Seq
TGAGTGAGT
5' ss Score
6.51
3' ss Seq
AACTGTTGTATTTTTTTCAGTGC
3' ss Score
7.97
Exon sequences
Seq C1 exon
CGAAGTCCGAGGCAGCGCCATCCTGTGATTTTTATTTTAATGCCAACTTGCATACTAGAGCCGGTTTAGTTTTTCTAACTGTTTCCAAGCGATCTGGCTCATCATCAGTCCTCACAGTGGTGCTGAACTGCAGCCCTCGCTGTCTTCACTGTTGAGCGCTCGTCAGGGGAGCGGACCTGCATCCTAAAGCAAACCTTTCTGAGACATTGCAGTCCTGTCACGTCTTCGGCTCTCCTATTTGCCTCCACCACGAGAGCGAGGTGAAGAAGAAGAAGAAGATGAAGCTGCTCAGCGGTGGTGACATGGCAAGAAGCAGTATCATTTAAAGTGGACCATCTTCTGCTCTTTTAATTCCACTGCAGCAACCTGA
Seq A exon
GTGAGTAGCGCACATTTCTGCTCAGTTAATGCCTGTGATATGAATCCGGACGCGGGCGGTGGTAAAGCCAGACAAAGGGGAATGCTAATAGATTAAATTTTAGCGCAATGGATTATCATTATGTGTTAATTATGTCTATGACAGCGTAATATAAATGGTAAGAATCGCTTTCGGTTAGCTATTGAACATTACATTGCCATCAGCTCCCGTAAGTTCAGCTTTTTTTTTCATGCAGTGCTTGAATGGTTTCCTTATGTTCGTATTGCATACTCAGTTCAAAGCTTGATCGGATGTTTGGGTCTGTCGAGAGAGCAATATGATTAGCTTATGTATGCTGGTCTCAGTTTAACTTTGTCTTTAAAAAAGATCATTTTCGTTATACTTACGTGGATTTGGAAAGGAAAAATCACAATTGAAATAATTATTTACATCAAAGTACTGTAACTGCAAGAACATTTCTTCCTCTTAATCTAAAGATTTTGCTTGCAATAATATGCTTTGCATGCATTATAGCGGCCTGAGGTTGCTACATTATTTCAATGACCTGTATGCACATACCCCTTCAGCAATCAATATAACCTAGGTCTTATTAACATCACATTCCTAAGTGCCCTGCTGTGCACATTAGCTAATAGGTGCTCCTGGAGGAGGGGAGAAAGAAATATTTTCCATGGAGGTCAAATTGATATTCCAGAGTCATTAGCTGATTTAGAAACTAAAGTGAAACCTCTAGAGAAGCATGATGCCTTTAAATGGATTAGGTCACATTTCGCTTCTTCTCAATATCACTACAGTAAATGCAGCAGGCAGACTTTTAAGTCAATAATAAGCTCTGGTACATTTGCTGACATTGGTTATTGAAGCCTTTATTCTTTATTTTGACTATATTGTTTGCAGTAAAAAAAAAAACTGCAGTCAAAGCAAACAAGCTGCATTCTGCTCTGTCATACATTAGAGGATAACCCCCCCACCCACCCCACCCCCACAATTCTCGAGTCATATCACAAATAACTTGTCAAAAGTCAACATCATTTGGATTGAACAGTGTTCATCACCCTCTCTATATTCACATCACTAAAACTGTTGTATTTTTTTCAG
Seq C2 exon
TGCAGTGAAGGAGCACTTGAGGCTATGCACTTGGCTGCTTATGGTGAAAGCATGTTGTGGGTTACACTGCTAAGCACAATTGCACTTGGATGGACGACTCCTATCCCTCTACTTGATGATTCAGAGGAAATAGACGAGCCTTGCTTTGAGCCCTGCTACTGCGAAGTGAAGGAAGGCCTTTTTCATGTTCATTGTGACAGCAAAGGATTTACAAATATTAGCCAAGTCTCGCAGTCATGGCTTAGACCATTCAAGCTCTACCTGCAGAAAAACTCTTTACGGAAGCTCTACTTCAACAGTTTCCTGCACTTGAACAATGCAGTGGCCATTAATCTGGGCAATAATGCCCTGCAGGACATCCATGTTGGTGCTTTCAATGGTTTGGGCTCCCTGAAGAGGTTGTACCTTCATGAGAACAAGCTGGAAGTGTTCCGGAATGACACATTTCTTGGACTGGAGAGTTTAGAATACCTTCAGGCCGACTATAATGTTATCAAGAGAATAGACAGTGGGGCGTTCAGAAATCTCCACAAACTCAGAGTGCTCATCCTTAATGACAATTTAATACCCGTGCTACCGGCGTTTCTTTTCAGATCTGTCTCTTTAACCCACCTTGACTTGAGAGGCAACCGACTAAAGACGTTGCCTTATAAAGGGATTTTGGAATATATTGGCCGCAGTCTTATGGAGATCCAGTTGGAGGAGAACCCTTGGAACTGTATCTGTGATATCATCCAGCTCCAGGCCTGGTTGGAGCGGATTCCATACACTGCAGTTGTTGGTGAAATAACATGCGAGTACCCTTTCCACCTCCATGGAAAGGACCTCAGAGAAATCAAACGCAGCGAGCTTTGTCCCTTGTTGAACGAAGCTGAGATTGAGTCTATTCTAGGTGTCCTCCACTTGCCGTTCTACACAGGGAGAGCGAGGCCTACAAAGCCATCTTCTATTGTGTCCTCAAATCAAAACACTGTTTCCTCTGTGGAGCAAAGAGAAAGGCCCCCAAAGCCAACAAAAAGACCCCGACCCTCAAAGACACCTCCCACACCACGTAGCGTGTTCCCTAATCAGCCACCTGTAGCCGGATACCAGACAAGGCCACCAATACCAATCATTTGCCCGATTGGATGTACCTGTAACTTGCATATTAATGACCTTGGTTTAACAGTCAACTGTAAGGAAAATGGGTTTCGGAACATATCTGAGTTGATGCCTCGACCCTTGAATGCTAAAAAGCTTTACCTAAGTGGAAATCTCATCCAGAGAATTTACAAGTCAGATTTTTGGAATTTTTCCAGTCTTGATTTATTGCATTTGGGAAACAATCAAATATTTTATGTCCAAGAGGGGGCTTTTGTTAATCTCCCTAATTTGAGAAGCCTTTACCTGAATGGTAATAATATAGTGAAATTAACTATTGATATGTTTCATGGCTTGCATAGCCTTGAGTATTTATATTTTGAATACAATGAGATACGAGAAATCCAGCCCGCTGCCTTCAGTTTAATGCCCTCCTTGCAGCTAGTCTTTCTCAACAACAACCTCTTGCGAACGTTGCCCATGGGAGCATTCGAAGGTACCTCGCTGACACGTCTGAACCTGCGCAACAACTACTTTCATTGCCTCCCAGTCAGCGGCGTTCTGGAACACCTGCAAGCTGTAGTCCAGATCGACCTGAATCAGAACCCCTGGGACTGCTCCTGCGACATCATCCCTCTCAAAGAGTGGCTGGACACGCTGAGCTTAGTGGTCATAGTAGGAGAAGTGGCATGTAAGACCCCCGAGCTGGTCTCAGGAAAAGATTTGCGCACTCTGAATTCTGAAGTGATTTGCCCTGAGCTCAGACAGTCCTCACTGTCTCCTGCAGAATCAGATAGCGGGCTTATCACTACGTATCCCGAGGTGGGGCCGCATCCACCGAAAGGTGCCATACCCCTCTCGGTCTTGATTCTCAGCTTGCTGGTTCTGTTTGTGTCTGCCTTCTTTGCTGCTGCAGCTCTCTGCGCATATGCTCTGAAAAAGCGTGAAAAGCTTCCATTTAGGAAGCAAGGGGAAGTTGGCCTGGCAGGCATTCAGATGGAATGTGGAATATTCACAGAACAGCCATCTACCTTACCAGAGACTCCTCCTTCCAATCACGTGTACGATAGCATTGGTGCACCCTCCTCGCATATGTGCAGCAACACCGTTTACAAAAGCGGACAGGAGGAGTCAGGGCAGAAGCATCCATTCTCAGAGACAAAAGAGAGTGGGTCACACTACAGGACACTTGTGGAGAAAGAAAAGGAGTGGACCATGGCCATCTCCAGCTCCCCCATTAACACTATTGTGAGCGTTGGCGGGCCGTGTGGTGACATTGCCGGCTTTCGTGAAAACGGAATACTCTGCCCGACTGTCATTGATAGCCAAGGTCCCACACCCAAGGTGGGATTAGTGGACAGTCTTTTTGGCACAACTCCTCAGTTTAGCAACCTGCCTGACAGACACACGCACCCTCCCTCAGAGTATCCACATGCCAAACAGGATGCCAGACAAAAGCAAACGATCACAACCACCACAGGGACAAGGACAGGATGTCCTAATCAAACCCAAAGTGATTACCCTGAGCTGAGGGCTAGACTCAAAACAAAGATGGATTACATTGATATGCTGGATAGGTCATATCAATTCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074739:ENSDART00000140844:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF138551=LRR_8=WD(100=6.8),PF0056028=LRR_1=WD(100=2.5),PF138551=LRR_8=WD(100=5.8),PF138551=LRR_8=WD(100=6.9)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTCCAAGCGATCTGGCTCA
R:
ACCCACAACATGCTTTCACCA
Band lengths:
352-1450
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]