BtaINT0039318 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016779 | CLIP1
Description
CAP-GLY domain containing linker protein 1 [Source:HGNC Symbol;Acc:HGNC:10461]
Coordinates
chr17:55355013-55357470:+
Coord C1 exon
chr17:55355013-55355062
Coord A exon
chr17:55355063-55357345
Coord C2 exon
chr17:55357346-55357470
Length
2283 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATA
5' ss Score
8.55
3' ss Seq
TTTTCTCCCAAACAAATTAGATT
3' ss Score
4.77
Exon sequences
Seq C1 exon
GTAATACTGATACTCAGGCAGAAGAGGATGAAAGAGCCCAGGAGAGTCAG
Seq A exon
GTAATATGCCTTCCTTTTGCTTTGCTTACTTGTTTTCTTTTTTTTTTTTAATCATTTAATGTTTTGACTAGATAATGTATTCATATGGTCTGAACATTGAACAGTATTAAAAATATATACACTGTTTAAAAAAAAACTCTCCCTCCAAACACCATCCCTCTCCTGCTTAGTTTCCAACCCCCTAAACAGATAATCAGGGTTATTACTGTCTTTTTAAATTTTTTCGGAGATTTTTAAAAAATGTATATACAAACCAAGACTAACACAGCCTTTCCCCTCTTTTGTTACACAAATGGCATAGAAACTGATCTCTAATTTTTTACACATGTATAGTATTCCATTATATGGAGAGATATATATATATATACACACCATAATTTAATCAGTCCTTATTGGTTGACATGACTTTTGGGACGTTTCTGATCTTTTAGGTGCATTATAAACAATGCTATAGTGTACTGTCTTGCACATCTATCATATTACAGCTATAATAATATTTCTTTAGGATTAATTCCTAGAAGTAGAATTACTCTGTTAAAGGTTCCTTCCTCATCTTTACCTTAAAAAGACAGTTCTTGAAAACTGTCTCCTAAAGCCAAAATTATCAAAATAGCTTTAGTTGTACAAGTGGGATTACATGGAGGTAAACTATTCTATTTTTGGAAATGGATGGCATCACCGACTCAATGGACATGAGTTTGAGTAAACTCCGGGAGTTGGTGATGGACAGGGAGGCCTGGCGTACTATAGTCCATGGGTCGCAAAGAGTTGGGCACTACTGAGCGACTGATCTGAACTGATAGCCCAGAAGTAATAAACATGTATTTTCAGTTTTAATTAATATTTTGGACATATTTATCCCATTCAAAATTCAAAGGTACAAAAGCCATCTTTCACTTTTAAATAAAAGAGAACTCAGTGACTTGGTGATTTGTTTGTTATGACATCTCCTTTGAAAGGCATGTAAGAATTCAACCAACAGCCTAACTTTAACCCTGGCTAGCATTGTCTCTGCTTAGTTTATATGTCTAATGAGCACAAAATTAACAATGTTTTCTCTCCCCCCTCTTCCTTTCTGCTTCCGTTTGTTTCATCTGCCACTGCCAACACTTTTCTTCCCATCAGCAAATGGTTTGTTTTATGTTTCCTAATTTGTGAGCATGTATGTGAGTGTGTGTATATGTGTGGCTTCCCACTGTACTTCCCATTTTATGGCTTTTTTTCCCCTTCCTGATATGATACGTAGCTCCCCACAGGATATAGTCTTATAAAATACAGTTTGAGAAGTGAGATAAGAGTCAGTGGGTCTGCCTTCAATGTCAGAAGGGATATTCTGCAGAGAATAACAAAGCTAGTGATTTCTAGCTTTGTTTTGTAACTGCCCCAGTGGGAGAAAAAGGCCAAATATTTCTTTGAAAAATAAATACTGGATGGGCCAAAAAGTTTGTTCAGATTTTTCCTCTTACAGAAAAGCCCCAAATGAACTTTTTGGCCAACCCAATATGTATGTATGAGTGTACACACACACACACAATATTTTTTTAAATTGTAAAGTAGGATTTTTTTTTCCTGATGGACATTTAGAGAAATGAGACCTTTTCATTATTTGTAGAAGAGAGGAGAAATCATTTTTAAATTAAAGTGCCCTTGCTTTGAAACGTCGGACAGGAGTGTTTCCTCCTGGTGGTCAGTCACCTCCTTACCCCACTGCTCCGAGTCTGGGCCCCGGTCCCCTGAACACTGCCCTCTCGGTGTGTGCCTGCATCAGTTGAAAGGGAGCTTAAGTCTTCTCTTTAAAATCCTTCTTTTGGGGCTTCCCGGGCAGTCCAGTGGTTAAGACTCCTCTCTTCCATTGCAGGAGGCATGAGTTCAATCCCTGGTCAGGGAACTAAGATCCCACATGCCATGGGGTGTGGCCCCAAACAGAAAAACTCCAAAAAAGCTCCTTCCTTTTTCTCTGAAGACCCACTTACCATCCCACCATAATAAGTGAATGTTAAATTGTGGTCTGAGGAGAATTTACATAAGCTTATTCAAATCTACAGAACGTGAAAGTCCTGGATTGGTTCTACAGTTTAGCTGAACAAGTAACTAGTTGTGCTTTTTGTACAATTGTGTGTGTGTGTGTATAAACATGTTTGAAAAGGGTTGAGTCACGGCCATTGCTGGCCCCTGTGACTTCAGCACACTCTGCATCCACAGCCTGAGTATAATTGCTGACTTCTTGATGCTCCAGGGTACATATTTCAGGCATTTTACACATTTTTCTCCCAAACAAATTAG
Seq C2 exon
ATTGACTTCCTCAATTCAGTAATAGTGGACCTTCAGAGGAAGAATCAGGACCTCAAGATGAAGGTGGAGATGATGTCAGAAGCAGCCCTGAATGGGAACGGGGACGACCTGAACAACTACGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016779:ENSBTAT00000022319:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.912 A=NA C2=0.595
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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]
SPECIAL DATASETS
- Pre-implantation embryo development