BtaINT0122421 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015232 | RAPGEFL1
Description
Rap guanine nucleotide exchange factor (GEF)-like 1 [Source:HGNC Symbol;Acc:HGNC:17428]
Coordinates
chr19:41109870-41113304:+
Coord C1 exon
chr19:41109870-41110389
Coord A exon
chr19:41110390-41113228
Coord C2 exon
chr19:41113229-41113304
Length
2839 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
GGTGGCGACTGCTCTTCCAGATA
3' ss Score
5.31
Exon sequences
Seq C1 exon
ATGAAGCCGCTGGAGAAATTTCTGAAGAAGCAGACGTCGCAGCTGGCGGGGCGAACGGTGGCGGGAGGTCCCGGCGGGGGTCCGGGGAGCTGCGGCGGGCCTGGAGGGGGTGGGGGACCTGGCGGGGGCGGCGGTCCAGCCGGGGGACCTCGGCCGCTGCAGCGGCGTCAGAGCGTGTCTCGCCTGCTGCTCCCAGCTTTCCTCCGGGAGCCCCCCGCCGAGCCGGGGCTGGAGCCGCCCCCAGAGGAGGACGGAGGAGAGCCGACGGGGGTCGCGGAAGAGCTCGGCAGCGGGGGCCCCTGTTGGCTGCAGCTGGAGGAGGTCCCGGGGCCCGGGCCGCTCGGGGGAGGGGGACCCCTGCGCTCCCCTTCCTCTTACTCCTCAGACGAGCTGTCCCCCGGCGAGCCTCTGACTCCTCCACCCTGGGCCCCTCTGGGCGCCCCCGAGCGGCCGGAGCATCTTCTGAACTGGGTTCTGGAGCGGCTGGCTGGAGGGGCTACCAGGGACAGCGCCGCTTCAG
Seq A exon
GTAAGGAGTGGGCTGGCTCATCCATCCCGGAGTAGGGTTTGCCCCATCCCCCACCCGGTCCTCTTGCTTGCCCTTGGACGGTGATGGTGGCGCCTTGCGGGAGCCTTGGTGTGGGGATGAGTGGTCAATTGAAGTGGGGTAGGGGCCTATGGGAAGGACAGAGCTTTCTGCAGCAGAGAAGTGGCAGTGCCACCTTCCTCTGCATAGCAGCCTCAACCACGCCTGGAGAAGAAGCTGAACCCCTTTTCCTCATTGAGCCTCCCTTCGTCTCCCCTGGACATTTCATCCTGACCCTGTGGGTCCCCGGTGTTGACTACCTCCTTCTGTGGCTGAGAATTACAGCTTGACACACTAAGATGGAAGCTGCCCAGACCAGTCAGTGCAGCCCTCTAGAGGTGGCCAAGCCCCAAAAGACCTTATAGGAGTCCCGGGTTCTCTTTAGAAGGCCCAGAGCAGAGGGCTGGCCCACTTGGAGGGGCAGCGCCAGACAGGCACACAGTGGCCCAAGCCGCCTTTAGGCTCTGGCAAAGGGATGCATTGTCCCTAGCAGCTTGGAAGGGGGCGGGGGGGCATGTGTGGAGGGAGGCATTCTAGTTTGGGGTGGATTCAAAGGTGTCTGGTGGCTGGGCAGAACTCAGGCCCTGCAGCATTCAGGGGGGTCCAAACCTCTCCAGCTCCCGCCCTTCCGGTGGCAGGCCTCAGCACAGGGCCTCTTTAAAAATAACCACACCCTGAGAGGCTTATTCCCTAAATGATGAAGCTATTTTGCCACTCCCCACCAGCACCCCTGCTAAGGAGATTTTGAGGAAACTGAGGCCCCAGATTGCTGGTTAGCGGCTGAAGTAAAAGATCCAAGGGTCTTCAGGGCTAGTTGTCAGCATTTCACTAACACCCAGTGGGGTCTGAGGATTGGGAGCCCAGGCTGAGGGCTTACAGATGGGAGTTTCACACATTGCTCCCAGACCTTTGCAGGGAGCCCTAACCCAGGTGTGCAGAATGGGGCTCCACTCCCCTAGATTTTTCTCAAGACCCAGGTACTCTCCTTGGCTCAGGTTGCAGTTGCCCTGGGGAGCTGACACCTTTTGGATTTAATTAGAAAAATATCAGACACACACAGCTCTCTTAACCATAACTTCCCGCCTACAGCACACACACTGTGTCTCTATGACACATTCCCTGGGGAGGCTGTGCATTGGACCAGAGCCTGCCTAGGAAGAGACAGGCACCAAGCTGTAGCCCCTATGGCACCATTTCCCCCACTCTGCCCCATGGTCCTCTTCCTTTGCTCTGTTTATCTTTCCTGTGAGATAAAGAGTAGAGGGAAGGTTTGGGGACATCCCTAGTCCTCATCCCCATCCCTGGGGCTGAGGATCAGGGCTGGAGGGGCTCTCTGACTCACTTTAAAGACTGAGCAGAGAGAAAAAGGGAGAAACTGTCTTTCTCCTTTTGCCAGGGCCTGGTGCCACAGATGCTGCTCAGTGTCCCCTGAGGAAGGACTCTTGAACTGACTGTCACTGTATTAGCTGGACTGGCAGGCTGGATCTCCAGAGTAACTGGTTTGGGGGAACCCCAAAGCAGTTCCAGAATAGATGAGAATCAAGCTTAACCTGCCACTCTATTCTCCAATATACTCTTAAGCTATCTCAGTTCCCTCCCAGGGTGTGTGGGCAGAGGAGACTTGCACAAGCTACCCCAAACAAGCCAAAGTAGCCCCCCGCTGCCCACTGTACTTCACTCCGACACTCTGCTTGCCTCAAGCACAGTGAGAAAAGAACAGAAACGCAGGAGTCAGGGTTCTTACTCCAGCTCCAGGCAAGTTCCTCTCAGCTCTGGGCCTTGGTTTCTCATTTGTGAAATGAAATCATTGAAGTTGAGGATCTCATGTTGATTCACCCGCTCCATTTTCATGGCTAGAATTGGAGGCCAGGGGATGGTGACCCAAGGGCCATCAGAAGCCTTGGGGCAGTACCTGGGGACCTGGCCCTAACCTGTTCTGATGAGGACACCTGGCTCCCTCCCCAGGCCCTGCCTGTCTGTGTGTGCCAGGCGGCCCTGCCTGTCTGTGTGTGCCAGGCTGCCTTGCCCCACCCCAGGGCTGGCTGCAAGTCAGGGCGACCTTGTACCTGGCTGACTGGCTGAGCCAGGCCCAGATGGGGGTGTGGAGGGGGAAAGGGTGGTGTGAGGAGCCACTCCCCTCCACCCTTGCATCATTAACTCTTCCATCCCTGGGCAGCTGGAGGACACAAGCTTTCTATTTAAAGGCTTTGGGATCAAAGAGATGGCAGTCGTCCCTCTCCCTTTTAATGGGGCTGGTTCTCACCTGCCTAGTTGGAACTCAAAACTCTTAGGTAGGGAGTGGGGAGGGGAGGAGGGACATACACACACATACATACACACACAAACACACACTGCCGCTGACCCTACCTGTGCTTAGTTCTCTTGGCCTAGAGACACTTGTAGAGACTACCTCTCTTCCCCGCCCCGCCCCCACCAGACAGATCTCAAGCTTGGCGTATTAAATGACCCCCTACCCACGCACACTGGCGAGAAGTGGGCGTGGCAATCGGAGGGCGCCCCCTCCTTCCCTCCAGCTGCCTCGGCAGCTGCCAACCCCACCCCCGCAGCGGCTGCCCAGAACCTTCACGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTATGGTGGGGCATGTGCAGAGCATGACTGGGCAGGTGGCTGAGGCTCCAGCCCAGCTAAAGAGAATTTGCCCTCGAGGCAAGAGAGGGGGAGTGGTGAGCGTCCAGCCAGGTCCTGGAAGTGCCCTTCTGACATCAGTGGTGGCGACTGCTCTTCCAG
Seq C2 exon
ATACCCTGCTGGATGACATCGTCCTCACTCATTCGCTCTTCCTTCCCACGGAGAAATTTCTGCAGGAGCTGCACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015232:ENSBTAT00000020265:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.862 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
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]