RnoINT0139699 @ rn6
Intron Retention
Gene
ENSRNOG00000009821 | Slitrk3
Description
SLIT and NTRK-like family, member 3 [Source:RGD Symbol;Acc:1310506]
Coordinates
chr2:170452702-170460754:-
Coord C1 exon
chr2:170460436-170460754
Coord A exon
chr2:170455705-170460435
Coord C2 exon
chr2:170452702-170455704
Length
4731 bp
Sequences
Splice sites
5' ss Seq
TAGGTACTC
5' ss Score
4.68
3' ss Seq
CATCTTTATTTCTGTTGCAGTTT
3' ss Score
9.16
Exon sequences
Seq C1 exon
GCACAGCCTGCCTGTCATCTGGGGCAAGCACAGAGAGCAATGGTCCTGAGCCCACCATCGCCAGCTTCACCGCGTTAGGTGCGCGCCCTGCTCTCCCATCGCTATGCAGCGACCATTTCCCTCAAAGTCTAAAAGGTGGACCACTCTAAAAGGATTACAAGCGTGATTTGGTAGCCTTTCCGAAAGTTGGTGGCTGGAAGAGGGGAAGATCCTGGGCGACAGAATGACGGATACAATGCAGCCTCGCGGAGAGTTTGCCCCTCCCGCTGAGAAGCCCCTTGGAGCGAACCTCGGAGATCCTGAGCGCTCTGCACCATAG
Seq A exon
GTACTCATCAACACCGGTTCCTACTTTGCCTGATTGAGATCAGTGTGTGTCTTATGTAGGATGTGTGCTGTAGAACGCATAGACTTTGGCCGCTGGATCTCCCATACACTCACAGGTGCTAGGGTTTTTTAAAATTTATTTATATACATTTATAAGAATTGTATTCAATAGATGTAAGGACGTTGGTGAAAGAACGGCTTCTGGAGACTAATATAACCTCAAACCTGTTCTACAGGGGAAAGAAATCTTAACTCTAACATATAGGCCAGGTGGCCAAGAGGAGAACCCCTCCCCCCTGTGGAGCGCTGGGTTGTATTTTAAGAGACCAAAGGAAAACGGGGATGGGGATATATATATATATATATGTATATATATATATATATATGTATATGTATATATATATTTTTTTTTCTAAAGAGACTCCTTGTGTTCTTGGACTGTCAGCAGCAGGATAAAAGGGTTCTATAGAAAGCTCATAGCTCTTCAGAAAATGAATGATGCAGCATTTTAATTATTTGTTCCAGGGAGATCGTTTCGCTTCCATATTGGAATATTTAATCTTAGATCTGGAATGAAGGGAAGCACTGAAAGGGGGGGTTGGGAAAGGGGCTCGCTGGGTAGAAAGAGCTTCTTGTCCTTCTCTGGACAAATAAATGGTGCCGGCGCTCCCAGCAGGACGCAGAAGAAACCAGCCCAAGGGCCCCGCATCCCCTAACTTTCAGAGTCTTCCCACCATTTAACATGCTATGCTAAAATAAAGGAAAGGAAGCTTGTGAAAGGGCCTTTAGGACATGGCCAATGTCCAGCACTGAGGACTGTAGTTCCAGAGACCAGTGGGACATGTTTGCAGAGGCCATTTACTGTGACTGGGAAGCCTAGGACAGCCTCCTGATTACCCATCCATTCCATTAGAGCCTGGATTCCCACAGGATCCCTGAAACAGCTGCTGCCTTTGCAAACTGGGAGATCAGAGAGATGGGCTGGGGGTACTGGGGAGGGAGGTGGAACTGCTCTTTTTTGATCAGTGTTCGGTGTGCACTGAGGTTTTTGAGTGTAAGCTTGTTTCCTGGTGGAGACCTGTCTGAGAAAAGGGTGGGTCTGGGATGTGAAGGGTACATACAGAATGTTAGAGAATCTTCTAGCCTGCTTACTGAGTTCGATCGCTGTTTCCAATCTTAGTTACTGTGGGGCAATAGACAGATGCCTGGATATTTTTAAGGCAGTCTATCATCTAGATCTCGGACTGACTTTTAAGCAATGCTTTGCTCAATTAGATGAAATAGACTTTAAAGTGGTAAGAAATTCATACCTATGCTCTTCTTTCTCTTCCTCTTCCTCCTCCTCTTCTTCCTCCTCCTCCTCCTCCGTTTTCAATACAGTTTTGTAAAATACCTTAAGGAAATCATCTTCAACACCTGCTAACTTTGAGGCCCTGACAAGAGAGTTCAATTATTAAGTAGTCAGGAAACTGAAATTCTACCCCCCTCCCCATGAACTGGTGATTGGATGGGGAAAGGAGTCCTGCAGTCTGGACACACTTCACAGTTCCCACTTAACAGAACCCCTTGATGCTTCCTGGACACTCCCCAATTCCACAACCAAGTTGTGTTTTCTCCTTGCATTTGAGGCTTTTGAAAGGTCCTGTTAGAGGGACTCTGTGAGAGAGCTGGTTGCTTCTACCCTGTCAAACCTGCATTCAATCGCCTCTCATCTGGACACTCACTATTATTCTCTTTTGGGGATACTAGAGAGGAAAGAGAAAGAGAGAGGAAGAGGGGGGAAGAGGAGAAGAGAAGAAAGCAGCAGGAGGAACTAAAGGAAAAGAAAATCAATGTCAGAAACCTCCCTCCTTTGAGGTCTCCAAAGAGTATGAATTACCCCATTGCTTTTCAAGTTTCTCCATCCCCCAAGTAATAGAGAGAGAGGGAAAAGAGGAGGTGAGAAAGGGAAGAAGGAAGGGAGATAGAGAGAGGCAGTAAGGGAGAGAAGGTAGAGGGGAACCTGGGAAAGAAGGAAGAAAGGAAGGAAGAGCGGAAAGTTGAAAGAAAACGCAGAGTTGTTGAGATAGAAGTAAATCTAAATTGAAGGAAAGGTTTTGGTGCACAGGGATTGAAGCAAAATGCAAAAAAGTCCGTTCAAGTAGCTAAGGATGCTTGAGCTCTTATTTGGGACACCCAGGCAGAGCCAGAGAGACTCAGCTCTTCCACCTGCAGGATGTGGATAACTAGCTCATCCTGGCCTTGAAGGGAAGTCTGTGAAGAGAAAAGCTCATTCCAAATATGGTTTCACTTTCCAAAGCCTCTGCATGAAAGAGGGGAACTAGGAAGCAAAGGTCCAAGGGGCTGGTACTCGCCCCCATCTCTACCCATGTCCTTCTGGCAAAAGAATGTTTCCCTCAGGTTCTCTTCTCTTTCTTGGTCTTGGCTTTATTCTTTTGAATACCTATACTCTTGAGTGCTTTACTTCTTTCAGCTCCCCTTCATGCTCCCTCGAGCACACGCTATGCGCGCACACGTGCACACACACACACTCACACACACACACACACACAATTGTATAGTCAAGGCTTCTTAGTGCTCGCTCCCGACCAAAGGCTAAGCGTGTTCCCCTACTTGGAGCTCATTTTCATGATGGGAAACGCTGAAGGGTTTTCAACACACATTAAAAAACAAACAAAATACACAGCGCGAAAGAAATCCAAATCCCGCAGTGTGGTATGAGCCTGCCTTCCCCCCTGGTGCCCAAGGGTGTAGGGTAACCGGGGAGAGCTGCTACAGAGGCGGCGCACCCAGCAGCAGCGGCGGAGCTGGAAGCCTGCTGCAGCCTCATCTCCTCCCTCCTTTATTGAGGGTGCCAAGCGGCAATCCTGCATCCTAAAGAAGCCCATTGAAGAGCCCATTGCATTCTCTGCACGTCTCAAGCTAGCTTTTTAATTTATTTTTTAGGGCCTTCCCCCCTCTCCTCAACCCCCCTAGCTTCGGCTTCTGCAAGAAGGGACTGGACAAGAGAGGATCCTTAAACTCAAGCTTTGTTTTCCTTGCTGCTTGTCTTTTCATTCTTTTCCATAGTCAGTGCTGAGAAACAAAAATAAAAACCAATATCCAAACGTCCTGCAAAAATAGGTAAGTCAACGATATCTGGTTTAGCCTGGTTGTCTGAAGCCCAGAAGTGTGGAAAAAACATTTTTTTAAATGGTGAGGAGGAATGTAATGTAAGTAGAGTCTAATATTTTAGAAGGAATCCAAGGGAAGACTAAGTGGCACTGTAATGTATCCTCATCTGCTTTCTCTGTCTCTTTTTCATTTAATTGTTTCTAAAAATTGACTATTCCATGCCGGAGGCAGATTCCACTTTGCTTTCTCAAGAGTTTCTCCTTGCAGCTGTGTTCATGATATGCCAGTAGAATGTAAAGATAAATTCTTCCCACTTTCCTTATAAATTGTCTCCTTGTGCTCCTTGTGTTTCAAGTTAAGGAATATTCCCTTGATATATGTATCTGATGTGGGAAGAAAACATAGGTTGGAGACCCTGATTATTTTTATTCATTAAAATCAGCCATTCAAATTCAATGGATATTTCACTGACTTGCGAAGGATAATGTAATAAACCTGTAATATTATAATGCATTTATGTACGTGTCTTCATATCCTGATGTGGCTAAGCAAAGCAAGAGAACCTTTAATGAAAGCAGTGTATGTTTCCAGAGTAGGGCACTGAGTTCATTTCTTCTCATTGGAAACATAAATCTTTTCTAAAATGTTATCACATACTTGCTCATTTATAAGCAAGAATTGGAGTTTCCACCCTTTAACCACCTACTTCTTTTTTAGATCCCTATCTTCATATATATGGTTCCTTAGTTGATCTCCAAGGCAAGATTCTCACTCCAAACTAAGCTCTTGCAAGTGTTTTGCTTCAGACACTCCCAGGCTTAGCGACCTTTAGCTGTCACTATCTTTAGCTCTGACAATTGCAAGGGCCTGTTTTTCAGAAGATCTCATCACTCTAATGCTTTAAACATCCAAATGAAAATGTGTAGACATTATTTATTTAACTAAAAGATACTTATATTTTCTGTGCTTGGACAGGAAAGGTTAGAGATTGGGCATGGAAGTGGGTTCACATAGTAATTAAGTAGCTTTTCATGGGTTTCTTAAAAGAAAAGCTTAAGTTTATTTTATAACAACTTTTCACATCTCAACATCCGATATTAGGCAATTTGTTCATTTTTCTTTGAACTATTTACTATCTTCTGGTTATACAATGTTTTAAAATAATAAATGTTTACAATTTGTAGAACAGTGTTTTCCCCCATGACTTCTAGTATGATCGATAATGGCAAACCTGAGTTTTAAAAGGCAAGCAAGTAAAATCACTAAGTTACTGTCTTTATAGCTGAATATGTCTGTGACCATAAGGCTGAGTCAGGATTCCAATTCCGTTGTTTTTTGTAAGAGGAAATCAGTGCATGCTGCTTTTGTTCATGTCATGTAACACTTACTGAGCAGGGTTTGGTTGAGGAAAATGTCATTGCATGTTGCAATATGTCAGACTCTTAAATTGAAAATATAGGGCCCACTTTAACCATTAAGCATTTTGCTGCCTCGTTTGGAATATCAGTTCCGTACCTGCTGAGGTTTTCATACCACTCTTAAAAAAAATTCCCCAGATGTAGGAGTCAATTAAAGTAGTACAAAAGCTAAAAATTCTGCATCTTTATTTCTGTTGCAG
Seq C2 exon
TTTTGTTATCAACCAGGAACGATGAAGCCAACCATAACTGAGATGCTTCACAGAGGGAGAATGCTGTGGATCATTCTTCTAAGCACAATTGCTCTAGGTTGGACTACCCCGATTCCCCTGATTGAGGACTCAGAGGAAATAGATGAGCCCTGTTTTGATCCATGCTACTGCGAAGTTAAAGAAAGCCTCTTTCACATACATTGTGACAGCAAAGGATTTACAAACATTAGTCAGATTACTGAATTCTGGTCAAGACCCTTTAAACTGTATCTTCAGAGGAATTCGATGAGAAAATTGTACACAAATAGTTTTCTTCACTTGAATAATGCTGTGTCCATTAACCTTGGGAACAATGCATTGCAGGACATTCAAACTGGAGCTTTTAATGGCCTTAAGATTTTAAAAAGACTATATCTCCATGAGAACAAACTAGATGTCTTCAGAAATGACACCTTCCTTGGCTTAGAAAGTCTGGAATATCTTCAGGCAGACTACAATGTCATTAAACGAATAGAGAGTGGGGCATTTCGGAACCTAAGTAAATTGAGGGTTCTAATCTTAAATGATAATCTCATCCCCGTGCTTCCAACCAATTTATTTAAAGCTGTTTCCTTAACCCATCTGGACCTTCGTGGAAACAGGTTAAAAGTTCTGTTCTACCGTGGGATGCTGGATCACATTGGCAGAAGCCTGATGGAGCTCCAGCTAGAAGAGAATCCTTGGAACTGTACCTGTGAGATTGTGCAGCTCAAGAGTTGGCTGGAGCGAATTCCTTACACAGCCCTGGTGGGAGACATCACCTGTGAGACACCTTTCCACTTCCATGGGAAGGATCTCCGTGAAATCAAGAAGACTGAACTCTGTCCACTCTTGTCTGACTCTGAGGTGGAGGCCAGTCTGGGGATTCCCCACTTATCATCAAGCAAGGAGAATGCCTGGCCCACGAAACCCTCCTCTATGTTATCTTCTGTCCATTTTACTGCTTCATCTGTTGAATATAAATCCTCTAATAAGCAGCCAAAACCCACCAAACAGCCCCGAACACCCAGACCACCATCTACATCCCAGGCTTTATATCCTGGTCCAAATCAACCTCCTATTGCCCCCTATCAGACTAGACCACCCATTCCCATTATATGTCCTACTGGGTGTACATGTAATTTGCATATCAATGACCTTGGCTTGACTGTCAACTGCAAAGAACGAGGATTTAACAACATCTCTGAACTCCTTCCAAGGCCCTTGAATGCCAAGAAGCTGTACCTGAGTAGCAATCTTATTCAGAAGATATACCGCTCCGATTTTTGGAATTTTTCTTCTTTGGATCTCTTGCACCTGGGGAACAATCGCATCTCCTACGTCCAGGATGGGGCTTTCATCAACCTGCCCAATCTGAAGAGTCTCTTTCTCAATGGCAATGATATAGAAAAGCTGACACCAGGGATGTTCCGCGGTCTCCAGAGCTTGCATTACTTGTACTTCGAATTCAACGTCATCCGGGAAATCCAACCTGCAGCCTTCAGCCTCATGCCCAACTTGAAGCTGCTATTTCTCAACAATAACTTGCTGAGGACCCTGCCAACTGATGCCTTTGCAGGCACATCCCTGGCTCGGCTCAACTTGAGGAAGAACTACTTTCTCTACCTGCCAGTGGCTGGCGTCCTTGAACACCTGAATGCCATTGTGCAGATAGATCTCAATGAGAATCCTTGGGACTGCACTTGTGACCTAGTCCCCTTTAAGCAGTGGATCGAAACCATCAGCTCAGTCAGCGTAGTAGGTGATGTACTCTGTAGGACCCCTGAGAACCTCACCCACCGTGATGTGCGCACTATTGAGCTGGAAGTTTTATGCCCGGAGATGCTGCATATTGCCCAACCTGGACCATCCCCACCCCAGTCTGGAGATTACCACCCTAACGGGGGACCGACAAGTGCATCACCTTATGACTTCTCTCCTCCCGGGGGCCCTGTGCCACTTTCTGTGTTGATTCTCAGCCTGTTGGTTCTGTTCTTCTCAGCTGTCTTTGTTGCTGCAGGCCTCTTTGCCTATGTGCTCCGTCGGCGTAGGAAGAAGCTACCCTTTAGAAGCAAGAGGCAGGAAGGTGTGGACCTTACAGGAATCCAGATGCAATGCCACCGTCTGTTTGAGGACAGTGGGGGCAGTGGTGGTGGGAGCGGAAGTGGAGGGCGACCAACTCTGTCCTCGCCAGAGAAAGCCCCTCCCGTGGGTCACGTGTATGAGTATATACCCCACCCAGTTACTCAAATGTGTAACAACCCCATCTATAAGCCTCGAGAAGAGGAAGAAGTGGCTGCCTCAGCAGCACAGGACACAGGAGCTACAGACCGTGGAGGTCCTGGGACACAGCCACCAGGAATGGGTGAGGTGCTCTTAGGAAGTGAGCAGTTTGCAGAAACACCCAAGGAAAACCACAGTAACTACCGGACCTTGCTGGAAAAAGAGAAGGAGTGGGCCCTGGCTGTTTCCAACTCTCAACTCAACACCATAGTGACGGTGAACCATCACCACCCTCACCCTCACCACTCGGCTGTTGGTGGGGTTTCAGGGGTAGGTGGAGGGACTGGGGGAGACTTGGCTGGGTTCCGCCACCATGAGAAGAATGGTGGGGTGGTGCTGTTTCCCCCTGGGGGAGGTTGTGGTGGTGGCAGTCTGCTACTAGAACGTGAGAGGCCACAGCCTGCTCCATGCACAGTGGGATTTGTGGACTGTCTCTATGGCACAGTGCCCAAATTAAAGGAACTACATGTCCACCCCCCTGGCATGCAATATCCAGACTTACAGCAGGATGCCAGGCTGAAAGAAACCCTTCTCTTCTCAGCTGGAAAGGGCTTCACAGACCACCAAACCCCCAAAAGTGATTACCTCGACTTAAGGGCCAAACTTCAAACTAAGCCGGATTACCTCGAAGTTCTGGAGAAAACAGCATACAGGTTCTAACAGAAAGAAGAAAATAAATTAGTGGCTTTGTTTTGATTTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009821:ENSRNOT00000013009:1
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=5.8),PF138551=LRR_8=WD(100=6.1),PF0146213=LRRNT=WD(100=2.8),PF138551=LRR_8=WD(100=6.2)
Main Inclusion Isoform:
NA
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:
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]