GgaINT0045615 @ galGal4
Intron Retention
Gene
ENSGALG00000010971 | CSRNP3
Description
cysteine-serine-rich nuclear protein 3 [Source:HGNC Symbol;Acc:HGNC:30729]
Coordinates
chr7:19226361-19229763:-
Coord C1 exon
chr7:19229467-19229763
Coord A exon
chr7:19228400-19229466
Coord C2 exon
chr7:19226361-19228399
Length
1067 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
TGTATTCTCTTTTTCAAAAGGTG
3' ss Score
8.43
Exon sequences
Seq C1 exon
ATGACAAAGAATGGTACAGTGGAATCTGAAGAGGCTAATACATTGACACTGGATGACATTTCTGATGATGATATTGATCTGGACAACACTGAAGTAGATGAGTATTTCTTTCTACAACCCCTGCCAACAAAAAAGCGAAGGGCACTGCTGCGAGCTTCTGGAGTGAAGAAGATTGACGTGGAAGAAAAACATGAGCTACGGGCCATCCGGCTGTCCAGAGAGGATTGTGGCTGTGACTGCCGTGTGTTTTGTGATCCAGAAACTTGCACTTGCAGTCTTGCAGGCATAAAGTGTCAG
Seq A exon
GTAAATGTCTATATTATTGTCATCATTTAAATAGCAAGAGAAGGGGTTGTAGAGGTGTGTGTGCATGCACTTTTTTTGTTAAGGTGGTAAGTACTGAAAGATTATTAAGTGAATTATTAAACAGTAACACTTGTGGATCTTAAACTAGTTTCAGGCTTGGATTTAAGAGTATGTAGTGTGCAATACAATTTTTCTCCTTAAACACTTTTATGATCAGTTTAGGCATATACACTGTTCAGTATTTTTTTTTCTTTGTTCATACATAAATATTTTCCTCCTCATGTTCCCCTTTGGCCTTTATCTAAACATGCAAATGGAAACAGAAGAATCAGTAGCCTGCAGATTTCACAAGGGTATGTAGCTTTTGTTTTAGAGACAATTCACATACTGTCCACATGTGAATTATAATCCAAACTCAATAAGAAGTAATAAGTCGGACTACGGTACTGACCTTTCTTTAACATGCATGACACTTAACATGCAAGCATGAAAAACTGCATGTAGGCAACAAAACATAGCAGGTAGTTTTTCTCTCTGCAGATTTAACGGTATCGCATATTGTACATATAGCTGTAAATGTACCAAATAGGAATTCCCTAAAAGATGGTTTCTGCTAATTACCATGAGTAGCTCTTATGCAGCTGAGTTGGTTTATTTGTATATGCATTTTTTTCATCATTTCCTAAATCCCAGCTAAATTTTCTCTGCTGTTCTGAATAATATATTCCCTTTGCTGCTCCTGTTTTCATCTTCACATTTTGAGAAGATGTACTAGATTGATTGTTTCATATGGCTCTCTTCTGCATCACATTTGATGTTTAGGTATTACAGTGTAGATAAAAATCACAGACCTTAAGCTAATACAACTACTTGATTTGTGGATTCAGTCATACTTTTATATGCTTAAGATGGATATTATGAGACATACGGATATTTGACATGGCTTATTCTTGCAAGTACTTCAAGTGAATTCCACTTCATCTCTGTCTATTTTTAGGCTTTCTAGGTTCTGTGATATGACCAGGTTTATGCTAAGTATTGTTAATCTGTATTCTCTTTTTCAAAAG
Seq C2 exon
GTGGATCGTATGTCTTTTCCATGTGGTTGCACTAAAGAAGGGTGTAGCAATACAGCAGGTAGAATTGAATTTAATCCTATCCGTGTACGGACTCACTTTTTGCACACAATAATGAAACTTGAATTGGAGAAAAATAGAGAACAGCAAGTTCCGTCACTAAATGGCTGCCACAGTGAGATAAGTGCACACACTAGTTCTATGAGTCCGGGACCCCATCCGGTTGAATATTCAATTGCAGAAAATTTTGAGATTGAAACTGAACCTCAGGCTGCAGTCATGCATTCTCAGTCAGCCGAGGACTTGGACTGCCCTGGGGAAGAGGAGGAAGAGGAAGATGGGAGTAGCTTTTGTAGTGGAGTTACTGATTCTAGCACTCAGAGTTTAGCTCCTAGTGAATCAGATGATGATGAAGAGGAAGAGGAAGATGAGGAAGATGATGAGGAAGAAAAAGCAGATGACTTTGTAGAAAGTATGAGCTCCCATGCTGACATGGTGCCTCTTCCTTCTGTCCTTTGCTACTCTGATGGAACTGCTGTGCATGAAAACCACTCTAAAAATGCCTCATACTATACTAACTCTTCAAATCTATATTACCAAATAGAGAACCATGTTGCTGGCACTGCTAACCAGATTGGCGAGACTTACTCAGAAAGGGATGCTGTCAAGAATGGCAGTCTTTCTCTGGTGCCTTACAGCATGACTTCAGAACAGTTTGTTGACTACACGCGGCAATCAGAGGAAACTTTTAGCAGCCCTCATTACCCTTCTGCAAACCCCTCAGTGATTGTTTGCTGCTCATCTTCTGAAGGTGACAGCAGTGCTCCATGTAACAGTTTATACACTGAGCATAGGCCAAGTCACCCTCAAGTGGAATTTCACTCATTCTTGAAAGGTCCTTCGCAAGATGGATTTGTTCCAGCTTTGAACGGCGAGAGTTGTGTACAAGAGCACCCTGCTGAGAATTCACTAGTCCTCTCAGAAAAGAGTAGACTGCACGAAGAGTGCATCAAATCTCCAGTGGTAGAAACAGTACCTGTTTAATATTAAAATTATTCTAAGACTGACTTCCTGTAATAAAATGCACTCAAGTTGGATTTCCTAGAATCTTATTATTTTTTACAGAGGTAGACAACACTTGGGCTATAGTCAGTGTTCCGGACACACCTTCAAGCTACATTGCCAGAGGCACTGTACAGAAGCAGTTCATGTAAAGATTAAAAAAAGCAAACCAATGTCAGACTGTCTTTTGATAAAAGTAAAACACGTAAGTAAAAAACCACACCTAACATATTTCAAAGTAGCCTACCTGTCAAATATGTGAAACCTGCCAAGCTATCTGAATCAAAGCTTCAAGTTTTTGATGGTCGGGCCTGTGCAAGATTGTTAAAAATGATAGTTTGAAATAACCAGGTTTAAGTCCTAATTTTCAATGTACCTGAAAAAAAGAACATAACTTTAATGTAAAAGTAATTACTGTACAAAAAAGTTTTAATTGTTCTGTACTGTATGTATTTTATTTATGGTAGTTTAGTATTCATGTTTTGATAAAAATGAACAGCAAGTTCATTTGAACAGAAGATCCATAGCTAGTAAGAAAGAGCATGACCAATCCTCAGCTGGAGTACCATGTATTTTTTAAATACCATTTCTGATAAATTAACTTAAAATGCATTGCTAGAGTACTATTTTCTCTTTTTACTGTCTCTGGCCAACAGAAGAGTCAGAAAGGGGGATCTGTACATCTTTTAAAAAGGTGAAAGGTAGACAATCCTCCATCAAAATTAAAATCAGTGGTATTTCCAGAACTAGCACCCCTTCCCAAAGAAAAATGATCTTGTATATAATGGCAAAGCAGTAACTTAAGCTTGCACAGCACCTTTTAGCCCAGCAAACATTCAGATACTTACTTATGCACTTTAGTGCCATTTTGCAGTAACGTTTCAACTGCAAAAACTGTGAACTATTTTGGAGGAATGCCATAGCTCCAGACTCCGAGGTGTATGTAAGATCTTAAAGTCCATTGTAGCAAAACTTGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010971:ENSGALT00000017873:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.131 A=NA C2=0.523
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF119423=Spt5_N=WD(100=27.1)
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:
TGCCGTGTGTTTTGTGATCCA
R:
CGGCTGACTGAGAATGCATGA
Band lengths:
355-1422
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]