BtaINT0077554 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001518 | ISG20L2
Description
Bos taurus interferon stimulated exonuclease gene 20kDa-like 2 (ISG20L2), mRNA. [Source:RefSeq mRNA;Acc:NM_001046217]
Coordinates
chr3:14157448-14159242:+
Coord C1 exon
chr3:14157448-14157648
Coord A exon
chr3:14157649-14158347
Coord C2 exon
chr3:14158348-14159242
Length
699 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCG
5' ss Score
7.38
3' ss Seq
TTTCTTCCTCCCTTGTTCAGGCT
3' ss Score
10.59
Exon sequences
Seq C1 exon
ATCTTGAAGATTCTGGCCGGGAAGATAGTGGTGGGGCATGCCATCCACAACGACTTCAAAGCCCTTCAGTACATTCATCCCAAGTCCCTCACACGAGACACCTCTCATATCCCCCTCCTCAACCGTAAGGCTGACTGCCCAGAGAACGCCACCATGTCTCTGAAGAGTCTCACCAAGAAGCTGTTGAACCGGGACATCCAG
Seq A exon
GTAGCGTCTCCCCAAAGGCTGCCAGACCCCTGGCTTGGACGGGAAAGGCTCACCTGGTGCCTCTCTCCAGGCTCTGACACTCAGATTCCTCTGACTGTAGAAAGATCCAGGGGGAGATGCTCTGATGGGAAGAACTTTGGGCAGAGAGGTCCATCTCTACTTAGGCATAACAGTTCTTGTTTCCTGCTTCCCAGAGTGTTCCCCAGGGTACTTGGAAAAGGAAAAAGCCTAAAAGTGGGACTAAAACCCTAAGTAAGAAAAATGGGAAGCAGGTAGATGTGGTGGCCTAACTGACCATAAAGTGGCTTCAGGGGCCTCTTAGTATTTCATATGTTTGGCAGTCAAAGAGGGGGTGGTCTGCCTGGCATGAGAGTATAGACATGTCATACATAGATTAGTTAAGGAACTAGGGAAGATGGAAGACTCAGAAGGTCTGTCTATGATCAGGTCTGTTCTGCTTCTACAGAAGAATGTAGAACAATATGGTGTGTACTTGTTGCCACAGAAAGGACTGAGGCACACCATAGTATAGGAGTTGAACCCCTGAAATCAGGTGATGAGTGGGGCCCCACCAGAGGTCTGCCTTTGCAGCCCGCTAACTGCACAAGCAGCAGCATCACTGAGGTTGGAGAGAACCAGTTGGGAAGGGAGGAAATGGCCTCTTGTAGCCTCATGCTCTTTTCTTCCTCCCTTGTTCAG
Seq C2 exon
GCTGGGAAAAGTGGACATTCCTCAGTGGAAGATGCTCAGGCCACCATGGAGCTGTACAAGTTGGTTGAAGTTGAATGGGAACAGCACCTGGCCCAGAATCCCCCTAAAGACTAGGGGTCACTGGCGATGCGGCAGGCGGAAGCAGCAACACAGCCAGGGCGGGGCAGTAGGCCATGGACAGCCCCACCAGCGCCGCACCTTGGAAGCCAGGGGTTCTGGGAGAGGGAGGCTGCACCCCAGGCTTAGCATCCATTGAAATTCACTTCAGGTGTTGTGTGTCTGGTTAACGTTACTTGGAAGGAGGACGCCTCCATGTCAGAACCCACCCCCGGGCCGTTTACCTCTTAAATGGTGCTAACCATGTGTCCCAAGGTGCTTTGCTTCTGGGAAAGTCTTTTGACTTTCAAAGGGCACGGCAAACTGGGAAATGTCTTTTCCCAAACTGCCTTATCGCTAGGGTGGCCATGTGTCTCATTATGCCTTTCCTCTCAAGCAATTAACAGCACTCTCTTTCACTCTCAGAAGTATCCTGTTGGATGATAACTTGTATGATCACAATGCATCTCTCAGACTCTGCTTTCTGCTCAGAGTCTACATCTGGTTTGTGTTGGGATATCACCTATTCTTTCCACCTTGAATTCCGGAGGAGCCATTCCTGGTGAGGTTTACTTCTCCTTAGGGTTATGGGCAGCAGAGGTAAGAGAGTGACTTGGAAATCAATTTTTCTGATTTAGGAAAGCAGTCTCCTAAAGTGATAGAGAATTTATTTAATTTAAATCCCACTTGCTAGGTTAAAGAAGAATTTTAAAGTGTTTCAATGAGTTTTAGTCTTTTACTTTGCTAAACCAAGCCTCTGAAAATGCAAATTATTCCCTTGATAAATTTTTTATAAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001518:ENSBTAT00000001989:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=0.378
Domain overlap (PFAM):
C1:
PF0092919=RNase_T=FE(42.3=100)
A:
NA
C2:
PF0092919=RNase_T=PD(11.5=47.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCCCCCTCCTCAACCGTAAG
R:
CAATGGATGCTAAGCCTGGGG
Band lengths:
348-1047
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]