GgaINT1004177 @ galGal4
Intron Retention
Description
zinc finger protein CKR1 [Source:RefSeq peptide;Acc:NP_990640]
Coordinates
chr16:201847-203835:+
Coord C1 exon
chr16:201847-201970
Coord A exon
chr16:201971-202294
Coord C2 exon
chr16:202295-203835
Length
324 bp
Sequences
Splice sites
5' ss Seq
TCGGTAACG
5' ss Score
6.62
3' ss Seq
CCCCCCCCCATCTCTCGCAGCTC
3' ss Score
9.97
Exon sequences
Seq C1 exon
GGGTCTCCCTGCCCTGTAGGGGATGCCCTGCCTGCCATGGAGCCCTATGTGCTGCTGGACCCGCGGCAGAAGGCGCTGTACCGGGATGTGATGCAGGAGAGCTACGAGACGCTGATGTCCATCG
Seq A exon
GTAACGCCGACCCCAAATCCTCCGTTCCCCCCCCCCCATTTCCATGCTCCCAACCTTTGGGACGCCCCATTTTTAGGGGGGGAGGAGGGGAAGCTGGCGGCCACGAGGGGGATTTCCCCAAATCCGGGCATTCTCTATGACTTTTTGGGGGTACCCCATTGCTGCGCTCCCACCCTTCAGGTGCCGCATCTGCTGCAGTTTTAGGGCCGGCCCCACTCCATCCATCCCAATCCCATTCCATCCCAGCCCTGCTCCGTCCATCCCGACCCCGTCCCATCCATCTCGGCCCCATTTTGACCCCTTTCCCCCCCCCATCTCTCGCAG
Seq C2 exon
CTCAGGGCTTGGTGAACCACAAAGCAGCGGAGGAGGACGCCGTGGGGCTGAAGGAGGACGCCGTGGGGTCGGAGGAGCCCCAAACGCACCCGCCCCATAACCCGGCACAGAACCGAACTGCGGGATCCCACAGGCGGAAAGCGAAGCGCCCCGACAAAGCCGTCCCCCTCGGGGTCGCGCAGACCCCCCCCGCCGCCCCGACCCCCAAACGCGATGGGGTGAAGCCCTCCCGGGTTCGGGACCGCCCGTTCGGCTGCCCCGACTGCGGCAAATCCTTCCCGTGGGCGTCGCATTTGGAGCGGCACCGCCGGGTCCACACGGGGGAGCGGCCCTACAGCTGCCCCGAGTGCGGGGAATCCTACAGCCAAAGCTCCCACCTCGTCCAGCACCGCCGCACCCACGGCGGCGACCGACCCCACAAATGCCAGCACTGCGGCAAACGCTTCGCCGGCGCCGCCCAACTCCTCGCGCACAGCCGGGGCCACGCGGCCGACAGACCCCATCGCTGCGGGGACTGCGGGAAGGGCTTCGTCTGGGCGTCCCACCTGGAGCGGCACCGCCGGGTGCACACCGGGGAGAAGCCCTACGAGTGCCCGGAGTGCGGCGAAGCCTTCAGCCAGGGCTCCCACCTGACCAAGCACCGCCGCAGCCACGCGGCGGAGCGGCCGCACCGCTGCTCCGCCTGCGGGAAATGCTTCGGCCAAAGCTCCGACCTCGTCCGGCACCGCCGGAGCCGCGCCGGGAAGAAACCGCAGCGCTGCGCCGAGTGCGGGAAGGCGTTCCGCGCCGCCCCGGCGCCGCTGCGGCGCCACCGGAGGGAGCGCAGCCATCGGTGCGGGGACTGCGGGAAGGGCTTCGCGTGGGCGTCCCACCTGCAGCGGCACCGCCGGGTGCACACCGGGGAGCGGCCGTTCCCCTGCGGGCTGTGCGGGGAGCGCTTCTCGCAGAAAGCCCACCTGCTGCAGCACGGCAAAACGCACCGCCCCGAGCGGCCCTACAAGTGCGGGGACTGCGGGAAGCGCTTCGAGGACGCCCCGCCTTTCCTGGCCCACCGGCGCGGCCACGCGGCCCTCAAAAGCTTCACCTGCGGGGACTGCGGGAAGGGCTTCGCCTGGGCGTCCCACCTGCAGCGGCACCGCCGGGTGCACACCGGGGAGAAGCCCTACGAGTGCCCCGAGTGCGGCGAAGCCTTCAGCCAGGGCTCCCACCTGACCAAGCACCGCCGCAGCCACGGCCCCAAAGCGCCTTTGCTCCCCGTGCAGGGGAGGGGTGAAGCGGGGGAGCCGCTCCGTGCGGCCCCGCTGAGCTCCGGGGCCGAGCAGCGGTGATGGGCGGAGAGCTCAGCGGGGTGGGGTGGAGGAGGAGGTGGGATGGGGAGCGAACAGAGCGGTGCTGCGGGGACGGAGCGCCCACTCCTGGCCCCGCTCACACCTTCCCGTGCTGGGCTGCTGAGGCCGGGGGTTGGGGTGGTAACCCGAGTGCCGAAACCCCACCGTCCGCGCGTGGTCCTCGCCGCTGTCGGGTCGGCCCGTCGGGAACGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000027546:ENSGALT00000043587:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.588 A=NA C2=0.455
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=85.3)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0),PF127732=DZR=WD(100=11.3),PF134651=zf-H2C2_2=WD(100=5.9),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.9),PF134651=zf-H2C2_2=WD(100=5.9),PF134651=zf-H2C2_2=WD(100=5.9),PF134651=zf-H2C2_2=WD(100=5.9),PF134651=zf-H2C2_2=WD(100=5.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTACCGGGATGTGATGCAG
R:
CTCCAAATGCGACGCCCAC
Band lengths:
348-672
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]