DreINT0152385 @ danRer10
Intron Retention
Gene
ENSDARG00000044954 | slit1a
Description
slit homolog 1a (Drosophila) [Source:ZFIN;Acc:ZDB-GENE-030722-3]
Coordinates
chr13:425353-428595:-
Coord C1 exon
chr13:428384-428595
Coord A exon
chr13:426886-428383
Coord C2 exon
chr13:425353-426885
Length
1498 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGA
5' ss Score
7.4
3' ss Seq
TAACCTGTTTTGTGTTGTAGAGT
3' ss Score
9.38
Exon sequences
Seq C1 exon
GTGTGTTCACGGCAGGTGTATACCGATGGACATGCAGTCGTACCGCTGTGAGTGCCAGGAGGGTTTTCATGGTGCGCTGTGCAACCAACATGAAGAGCTGTTCAACCCGTGCCGAAAACTGCAGTGCAAACACGGCCACTGCCAGATCTCTGACACAGGAGACGCGTACTGCCACTGCGAGCCGGGCTACAGCGGAGACCTGTGTGACCGCG
Seq A exon
GTGAGAAAACTACACTGAACACATCACCTACAGTGCAGAGATTACATGTGTTGAAGCTTATTAGATGTATTAGCTCATTCAATCCACCAGTCCCGCATGTGTTTGGACTGTGGGGGAAACCGGAGCACCCGGAGGAAACCCACGCCAACACGGGGAGAACATGCAAACTCCACACAGAAACACCAACTAACCCAGCCGAGGCTCCATGCTGCCTACAGCATTGGATGTAGGTAATTGTGATGTTGTTTTCAGTCAAAACTCATTTCACACAGCATGATTTGAATCACCGACAGCTCTAGATATTCAGCACGCCAAATATCTCACAGGCATCGACGACTCATCGGCGATTCTCTCAGATCGCGTCTTTCAATAGTTCACATTGTGTGACTGTCACTCACGTGCACGAGCACCGATTTGCCTGTGATTTCATGCATTTGTCTGCGATTTCTCAAAACCTGTCGGCGAGTCAAAATCGGGGATAAAATCATGCAGTCTGAACTCGGCATTACACATACACTTTGCACAATAAAATAAAATATGAACCCTTTAATTTCCTCAACAACAAAAAATATTAGAATTGCATTTCTTAACTCCTAATATCGCTGGTTAACACACTCAATGCTTTTTTTTTCAACACATCCCATAATTTCTAAAATATCAACCTTCACCAATATGTTGGTTTGTGGTTTAAGTACCAGAATTAATACGAAAAGTCTGAAAAAATGAAGTGGAGGACCAATTTATTTAAAAAATATTCAAAATAAAACTTTTTTGAATACTAAATCATCTTTATTTTTTGAAGTATGCCATAAAATAATACTCATTTAAAATGTTTTTTTGTTTTTTTTTTGCAATAAAACCAAAATTAAGTGTAGTATTGCAACAGGATTATTTGTTTGTTTTCTTTGTAAACCAACAATGCTGTGCGTAAACTATTATTTAAAACAGGTAAATCATGGTCAACTATTTAGTAGAGCAGGCAGTCAATGAATTTCAGAAAATGTCCACTTCGTTCAGGCGATCTCGGACCGTTTGTTTTGCCGTGGATCTGAATGTAACTGTGGTGTTCACATATGCCCAAATGAATCCAGCTAAGGGCAAACGCGCCAGCCTCCCAAACATATGTCTAAGTGTGAAAGCACCCTTATTCAGCAAGTCTTGATAGTGTGCGGGATTGTTTGTTCCCCATTGCACAAAATTCTACACAGAAATAGCAAAAAACGTGAGAAGGGTAAAAACAGAGATGGGAGCCAGCTCCAAACGTGTGGAACTTGAGCTCCACGTGGGCTGTACAAACCTGGAGTTTCATTTATTTAATGTCTTGTACATGACACGGAGTCCAACCTATTTTATTAACATCTACACCTACCCCAACCCTAAACCCAGCCTCTTAACCCACTTGGAGGATCTCCAGGCTGCAGCGATGCCTCCTTAAAAAATGTCTGCAGATTCCGTCCTGCACTGCTTCATCATCTCTGTAACCTGTTTTGTGTTGTAG
Seq C2 exon
AGTCGGAGTGCCGCGGGGAGCCGGTGCGGGACTTCTACCAGGTGCAGCGTGGTTACTCCATCTGCCAGACCACACGCATGGTGTCGTGGGTGGAGTGCAGCGGTGTGTGTGAGTCTGGCTCCTGCTGCGCCAGCCAGCGGATGAAGCGCCGGAAATACAGCTTCGAGTGCAGCGACGGCACGTCCTTCAGCGAGGAGGTGGAGAAAACCATCAAGTGTGGCTGCGTGGGGTGCATGTAGGACACGACCAGCAGCACACCGTCATCACAGCCGCAAAACACACCATCCCCCATTGGGTATTCAGAGACGACAACCCGTAACAACACCCGGATAAATTCAGCCTCTTTTTGTGCTTGCGCTCGTTTCAGCAGGACAGAAAAGTCACGTCTTTCTGTTGTTTTTTTGACTCTCTCTGGACGTGTATCTGAGCAGATAATGGCGACGCAAGCACAGAGCTTCCACATTTGCGAGCACAAAACAAGCTAAATGTAATATATATATAGATATATATCTGTGAAAGGGAGCGTGCGATGGATTGACATGCTGTCGAGACAGATATTTTCAGTCATTTTGTGATTATGTGGGGCACACAGGACTCTTCTGCGTGTCCTAAATCCACAGTGCACGTGATTGATAGAAGATGCATCGGATAAAATACACAGTTATCATAGGAGCTGCTTTACAGTATCTCAGCCTTTGGTAGAAAACAAAGTCAAACTAAATCTAATAGATGACTTGGCAGACAAAAATACCATTCAATGCTCCTTAAACAGCTACCAAAGGAGCTTCTTTACAATATCTGGACTTTTGGTAGAAAACGAAAGTCAAACTAAATCCAGTAGATGACATGGCGGACAAAAATACCCATTCGACACTCCTCATATAGTTACCAAAGGAGCTTCTTTACAATATCTCGACTTTTAGTATAAAAACGAAAGTCAAACTGAATGGAATAGACAACAAGGAGGACAAAAATACTATTTCAACGCTCCTTGTATCGTTACCAAAGGAGCTTCGTTACAGTGTCTTGACTTTTAATAGAAAACGAAAGTCAAACTTAATCGAATAGTTGACACGGATGATTAAAAAACCCATTCGATGCTCCTTATGCCGTTAACAAAGGAGCTTCTTTACAATATCTGGACTTTTGTTAGAAAACGAAAGTCAAACTAAATCCAGTAGATGACATGGCGGACAAAAATACCCATGCGACGCTCTATAGTTACCATACGAGCGTCTTTACAATATCTCGACTTTAATAGAAAACAAAAGTCTAACTAAATCAAATAGTTGACACTGAGGATAAAAATACCCATGCGACGCTCCATATATAGTTACCAAAGGAGCTTCTTTACAATATCTGGACTTTCGGTAGAAAACAAAGTCGAACTAAATTTAATAGATGGTTTGGCGGACAAAAATACCCGTTCGACGCTCCTTATATAGTTACCAAAGGAGCTTCTTTACAGTATCTCGACTTATAATTAAAAAAGAAAGTCAAACTAAATCAAATCATCAACACGGAGGATAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044954:ENSDART00000128969:36
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(66.7=36.1),PF0000822=EGF=WD(100=43.1)
A:
NA
C2:
NO
Main Inclusion 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:
CGCTGTGCAACCAACATGAAG
R:
GTTTTCTCCACCTCCTCGCTG
Band lengths:
346-1844
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]