DreINT0047575 @ danRer10
Intron Retention
Gene
ENSDARG00000059596 | clip2
Description
CAP-GLY domain containing linker protein 2 [Source:ZFIN;Acc:ZDB-GENE-100727-3]
Coordinates
chr5:58792704-58795691:+
Coord C1 exon
chr5:58792704-58793669
Coord A exon
chr5:58793670-58795633
Coord C2 exon
chr5:58795634-58795691
Length
1964 bp
Sequences
Splice sites
5' ss Seq
AATGTTAGT
5' ss Score
-1.83
3' ss Seq
TGTGTTTTCTTCCCATCCAGATG
3' ss Score
11.08
Exon sequences
Seq C1 exon
CAAACTACCGTGGAGGAGAAGACTCGTGTTATGCAGCTTGAAGAGGAACTGGCCTTGCGCAAGGCTGAGGTCGAGGAGCTCCAGGTTCGATTTCAGAGAGGCTCCTCTGGTTCGGCCACAGATGCTGAAGATGGAGAACCAGGCATAACCTCCGAAACTCTGGTCTTGCGGGAACAGCTTCTCTCGGTGGGCCGTGAACGCCGCGAAGAGAGCAGCCAGCTGCGCGAGAGGTACGAGGCATCTCTGAGCACCAGCCAGAAAGAAATCGAACGCCTTAAAGCCATTACAGAACGTCAGGGTCAAGAGATTTCTGACCTGAAGCAAAGACTCCAGCAGGCCACTCGAGAAAACATGGAGATGATGGACAGCTGGAAAGCCAAACTGGACGCTCTTGTTGGAGACCATCAACGTGCTCTTGAAGAACTGAAAGCCTCGTTAACAACAGATTGTGGGTCTGGTGAGATCAATGGAGGAGAAGGTGAAGGAAGCTTGCCTGAGATGAGAGCAGCTCTTGAGGGCTTAAAGATGGAGCACCAACTGGAGTTGGAGAACTTGAAGGCCAAACATGAGATTGATGCTGCAGTGATGGCCAAAGAGCGTGAAGACTTACGCAGCCGGCTTCAGGAGCTACGGGACCAGCTTGAGGACAGCGAGGAGAACTGGAAGATCCAGGTGGAGACCAAGAGCAACCAGCACACGCTGGAAATCAAAGAGGTTTCAGAGAAGCTTCAAAAGGCTGAGCTGAGGATCGTAGATCTGGATAAGTCTCAGGAAGAGCGTGAAAAGGTCAACCAACTTCTTAAAGAGCAGCTAATGCTGGCTGAGAAGAAGATGGTAGATTATGAGGCCCTGCAGAAGGCTGAAGCTCAGAGCCGAGCTGAAATCCTCTCTCTGCAGGAGAAGCTCAGAGTCACAGAGAACCGACTGCAGGCTGTAGAGGCAGATCACACCACTCAGGATGTTAAT
Seq A exon
GTTAGTGACCTTTGATTCAGTAAATGATTCAATTATTTACAAAAGTTTAGGAGGCTACCCAGTAGGCACAGGATGTCAACATGGCATCAGATTGACGTTATACCACTATGTTGTGGGACGTTGCATTTGGTTTCGAAATCAGGTTGACATCAATGTCCCACTCGGACAGATGTTGCATTTTAATTACTTTCCAATGCAACCTAAAAACAAATTATTAGCAACTAATGATGTTACAGCTTGGCGTTGTGTGGATGTAATCAATATGATGTCTATCAGACGTTAGATTTTGTTTGCCATACTTGACGAATAAATGTCAGTATTTGACAAAAATATGACGTTGGTTTAAGATGTTGGCTCAATGTAAGGTTTTTGGTCACTTTCCAACACAACCTAAAATCACCAAAATATCGACGTCATTTTATGTCATTTTTGGACATCAAAATAACGTCCTTAGACGATGGTGACATAAATATAACCTAATATTAATGTATTAACGTTTTATGACGTTGTGTGTCTACTGGGTAGTGAAAAGGCAATGAAATCCCTTCTTCTAGTAGTGGGATCATAATAAACTTTTGAAAAATTCTGTAAAAGTGGGTGAGATAAGGGAAGAATAGTAAGACAACAACGTCTTGTTTTGGCTGGAATAAAACCAGTTTTAATTTTTTTATATATTATTTAAATTTTATTTAAATTTTAATTATATAATTAAAATTATTTATTTAATATAAGCTCTGACAGGTTTAGAAAAAGTTGAGTAAGAGTAAATGTTGACAGAATTGTCATTTTTTTGATGAGACAGTCTCTGTGGCTTATTTAGTGAGCATTTGTGTTCAGTAAACCATTTGATTTGTTATATCAATGAGCTGTAAAAACACACTGTAAACAGTAATGCTCATAAAAAGAATCCACCACATTTGTCAAAGAAGTTTATGGATGAAAATAACATCCAAAAAGCAAAAAAAAACAAAAAAAAAAAACAAAAAACACACACACACTTTCGATCCCTGAGTGCATTTCTAAGTGCTGTAGTCATTTGCATATCGTAATTCCTAATGCAAAAAGGAGTACTTTTGTACATAAAAAATAGTGCATTAAAAGCTCTCCTAGGCGAGGCAGTGGCGCAGTAGGTAGTGCTGTCGCCTCACAGCAAGAAGGTCGCTGGGTCGCTGTTTCGATCCTGGGCTCAGTTGGCGTTTCTGTGTGGAGTTTGCATGTTCTCCCTGCCTTCGTGTGGGTTTCCTCTGGGTGCTCCGGTTTCCCCCACAGCCCAAAGACATGCGGTACAGGTGAATTGGGTAGGCTAAATTGTCCATTGTGAATGTGTGTGTGGATGTTTCCCAGAAATGGGTTGCGGCTGGAAGGGCATCCGCTGCGTAAAAACTTGCTGGATAAGTTGGTGGTTCATTCCGCTTTGGCGACCCCGGGTTAATAAAGGGACTAAGTGACAAGAAAATAAATGAATGAATGAAAAGCTTTCATAAAATGATTGTCTTCTAAGGTGTGTAACATAAGCTCTAAGAAAATGTAGCTTAGTGTTTTATGACCCTTTCATGGTAACTGGGTTATTTTGTAGACTAGTTAAAAAGTGCACAGGTCTGCATTTGGAATTGTTTTTATATATTTGAATGATCCTGATGGGATGAAAAACTGTCTAAATTTTAGCCGAAATCCTTTTTTATTTAATTTATTAGGATCCTCGAATTGTTCCTGTATGAGTTTCTTTTTTCTTTTGAACACAAAAGAAATTATTTTAAACAATATTGGTAAACAGTTGACAGTAGCTAAGTTGACCTTAATAGCACAATGTGTTATTATGGAAGTCTCTATTTCTGCTGTACAAACATTTTTCAAATATCTTTTGTGTTTACTTAAAATGAGAAATTCGTCTGGGTGAGTAAATGATGACACAATTGTTTGGGTCTCTTTTAAGATTTACTTAAATGTGTTTTCTTCCCATCCAG
Seq C2 exon
ATGATTGAAAATAACGACAACTCTGACGAAAAGGTTAAACTAAAACAAAATGTTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000059596:ENSDART00000148659:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.581 A=NA C2=0.950
Domain overlap (PFAM):
C1:
PF045827=Reo_sigmaC=PD(39.3=47.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGCGAGGAGAACTGGAAGA
R:
ACCTTTTCGTCAGAGTTGTCGT
Band lengths:
355-2319
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]