GgaINT0044982 @ galGal4
Intron Retention
Gene
ENSGALG00000008697 | RBM20
Description
RNA binding motif protein 20 [Source:HGNC Symbol;Acc:HGNC:27424]
Coordinates
chr6:25642490-25645384:+
Coord C1 exon
chr6:25642490-25643600
Coord A exon
chr6:25643601-25645322
Coord C2 exon
chr6:25645323-25645384
Length
1722 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
GTCTCTTTGTTTCAACATAGGAC
3' ss Score
8.97
Exon sequences
Seq C1 exon
CGCTGCCAAGCTCCTGGAGAAGAGCCCATTCTCCGTCAGTGCCCCGAGCCCCCTGCTCCCCTCTCCGGCCAGCCTGCAGCTGGCCCAGCTCCAGGCGCAGCTCACACTGCACAGGTTGAAGTTGGCTCAGACCGCCGTCACCAACAACCCGGCTGCCGCCACAGTCCTCAACCAGGTGCTCTCCAAAGTGGCCATGTCCCAGCCGCTCTTCAACCAGCTGCGGCACCCCTCTGTGATGGGTGCTCCTCCAGGACATGCTGCGGGTGGCCCTCCTCCAGGGCCTGGCATTGCTAGCACAAGATTCTCCTCTGGCGGCATTGCCTTTCCCGCACAGAATGCGGGGGGCAGCCTGGGGCCCGTGCAGGCCCAGGCCCCCAACGCCATCGTCATGAGTCCCTTTGGAGGTGTCATGGCTCCCACCTCCAGCCAGCAGCCTGTGGTCGTTGGACTCAACAAGGTGGGCCCCTCTGCCGCTGCCGCCGCTGGGGGCTTTTATGAGTACAGCAAGCAAAATGTCACCGCCCCACAGGCCTACACCTCGGAAGGGGATCAGTCCGGCTTCCCTTCAGCAGTCGGGGCTCGCTATGAGGGGCCCTTTGGCCCCGCCGGCCCGCTGAAGCATGACACTCCAGCAGGGTTCCAGAAAGATGCCTATGGTGCAGCACCAGCCTTCCCCGGCGACCCACACACTGGTGCTCATCCAAAAGGAGATCCCAGCCCCATCTTACATGGCACAGGTACAAGCAACCAGTGGGAAAATATCCCGAATTTCTCCAGCCAAAACAAGTCTGACCTCCTGCCCAGTGACAGCATGTGGCCATCAGCAAGCCAGCAGCCGTATGAAATAAGAAACGAGCTGTACAACCCTGAAGAACCGACACCTGACACAAAGTTTAGCACTGCCACTGCCCCAGCATTCGGCAGGCTCAACAATAGCAAGCAGAGCTTCGGCAGCCCTCGGCTGAGGCAGAATGAGGAGCTGAGCGCCGGTGCGCCCGACCTGCCCATGAGGTCACTGCAGCCCCACGAGCTGAACGACCTCCATGGCGTGGCTCCCCTCCACTTCCCCCACGTCTGCTCCCTCTGCGACAAGAAGATCTTTGATCTAAAG
Seq A exon
GTGAGTGATTTTAACGTGCTCACCAGCACCCGTGGCGTTCAGAGGGGTTTCCCTGTCCGTCTGTCAGGTGATTTATCTGTCTGCCTGTTCTAGCGTAGCCGTGTCTGTCAGCCAGGTCAGCCTCTATCACAGAGAGAAACACAGAGTTTTGTAGGGCTTGGAGTAGCAGGACTGTAGTAGGGCAGGACTGTAAATCTGTTCAGTGGAAACTGCTGGGGTTTCAAGATCTGTTTTTGTTCTGCATTGCACTGTGAAAATGTTCCACATGTGTGTGTGCAGCAGTCAGCCGCTGGGAGGCTGTGGTCCTGGCGTGAGAAATGCCAGACCCAGGCATGCGTGGTTTCCATCTCTGATGGGTGTGAATCAGGGGGGAGGAGGAGCTTGAACCTTATCCCACCTCCTCCAGCCTGTATTGTAATTGCACATCTGCAGTTTCATTTGGCTGTCTCTGTTTCTGATCCCAAAGCCTTCCTGATAGAAGCTTTGTGCAAACTTGCTTGAACAAAATAGCACTTTTCCATAAAATGACTTTGCTAATTTCTTTGTTGGGATGTCCTCCACCTTCCAGTAACTTAAAGGACTCACTGTCCTAGTGGCTTTGGCCTGGAAGAAAGATGCTACCCAGCATAAGGGGTGCAGACTGGGCTCCCAGATCTTATCTGTTTGTGGGCCCTAAGGCTTTTTCTTGACCACACTCATATTGTCAAAAGAGCCCCAAATTCAAACTCAACCTTGAGCAGAAACTTGCCTGTTGTACAGAGAGCCTGTGTTGCTAGATCATGGTGAATATGTCAGCTCTGGAGAGAGCCACGTGTGTGCCTCTGAACCCCACTGCCATCCACGGGCCTTGCCTGGGGTCGTTCTGCCTGCTAGGTGAGCTCTGTCCCACAGGTCCTTGTGGCCTTTTCCATCACATTGCAGGACCAGCACCTCACTGCAAAGGCACGTGTTTTCATGCCAGTGGTGGCCTGACAAATATATTGCAACAGCATGAGTATACAAAGGAAGGTAGCCAGCAACTGAAATAGTACCTGATACATACATGCCTTGTGGCTTTGGGAGATTTGAATATATTTGTTCTTTCATGTTTCCCTTTTATTCTTTGAGCAGCTGCTTGCAAGAGGCTTTCCTATGGCTACTGCAGCTACAGAAGTGGTCTGAACTCACCCCCACCTAGGGCACGCTGGACATATGTGTTTTTCATTAAACATTTTAGAAGGGTGGTGTAGTTGTAATTACAGTGAGCTTCAGTTGGCTTGTTTATTAGTGTTTAATACACTGCCTTATTTGGTCCATAGATACGTAAATAGCTGAATGCACTTCTCTTACAAATGTGTTCATCTACTCAAATGGACGATCACTATCTTTGCTGCCATGTGTGATGAGCACCCTTGTTATGGACACTGCAGGAGCTGAGGATGCTCAGAGCTTTTAAAATGAGCTTTTCAAAATAAATTACCTGATTTAATAGAAATCAACATGTAGAATTTAAAACCTAATACAGAGAAGCTATCTGTGTGTTAAGTAACTGGTAACTGAGTCTACAAATAACAAATGAGTAAATGCTGTGGATAAAAGTACGCTTGGCTGCAGTATCATACAGTTAGATCTTCAGCATCTCAGTATTGGCTTTAGGATAAGGTAAACTGAACCGAGAAGCAATCTTTCAGCAATTTGTCTTAGGATTTTTCCTGTGCTCATCGTCTCTTTGTTTCAACATAG
Seq C2 exon
GACTGGGATCAGCACGTAAAGGGAACTCTTCACATCCAAAAATGTATGGCTTTTTCAGATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008697:ENSGALT00000014156:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.775 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF121713=zf-C2H2_jaz=PU(51.9=4.6)
A:
NA
C2:
PF121713=zf-C2H2_jaz=PD(40.7=52.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACAAGTCTGACCTCCTGCC
R:
TCCCTTTACGTGCTGATCCCA
Band lengths:
355-2077
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]