BtaINT0165433 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020445 | ZNF398
Description
zinc finger protein 398 [Source:HGNC Symbol;Acc:HGNC:18373]
Coordinates
chr4:113060026-113061263:+
Coord C1 exon
chr4:113060026-113060152
Coord A exon
chr4:113060153-113061149
Coord C2 exon
chr4:113061150-113061263
Length
997 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
TTCCCATTTTCCTCTCGTAGATT
3' ss Score
10.59
Exon sequences
Seq C1 exon
GTGCCTGTGACATTCGATGATATCTCCATCTACTTTTCCACTCCAGAATGGGAAAAATTAGAAGAATGGCAAAAGGAACTTTACAAGAATATCATGAAGGGAAACTATGAGTCTCTCATCTCCATGG
Seq A exon
GTGAGGCTAAGTTGGCACGGTTTGAATGAGGGGACAGCATCTCCGAGCAGTCTCAGAGCAATCCCTTTTCCTCCAGTGTCTTCATTTCCCTCTGTCCTCATGCATTTCTGGTTCCAAGCCAAAGATGTCCAATTCACCCTTGCTAAATAGGAAGTCACAGTTTCTCCTTCTGCCAAGTCAGGGGACAGAGGGTGAAGTTCAAGGTTGTGGGTGTGCCAGCTGCAGTGATCTCCATGGTGTCCTTCCTATTTATGGCCTCACGTCTCCTTGCTGAGGCGCCCTCGCTCTTACTCCATGGAGGCAGCAGTCCATGGGCCTCGCCTCTCCTCGCTGAGGCACATGCACTCTTAGTCCATGGAGGCGGCAGTCGGTGGGCCTCGCCTCTCGTTGCTGAAGCGCCCTGCTCTTACTTCATGGAGGTGGCAGTTGGTGGGCCTCTCCTCTCCTTGCTGAGGCACATGCACTCTTAGTCCATGGAGGTGGCAGTCCACGGGCCTCGCCTCTGCTCGCTGAGGCGCATGTGCTCTCACTCCGTGGAGGCAGCAGTCGGTGCTCAAGGAGCACACAAGCCTTTCCCACACATCACCTCTCCTCCCACTGGTTTCCCAATAGACACCGTCCATGGTTGGAGGTGAATGGATGGGGAGAGCGGTCTAGACCAGCTGTCCCCAACCTTTTTGACAACAGGAACCGGTTTCGTGGAAGGAGACAATTTTTACACGGATGGGGTTGGGGCTCATGTTTCAGGTGATAATATGAGTGATGGGGAGCAGCATATGAAACCTCACTGGCTCACCGGCTGCTCACCTCCTGCTGTGTGGCCCGGTTCCTAACAGGGCACAGACGTACCAGACCAGGCCTTGGGGACCCAAGTGATAGACTCAAAGAAATTCCCTGGGACTGTGGGCCTCACAGCCTTCCGTTCAGCTTCGATGGCCATTAGTTGGCATCCTCACTGATCACTTGTCATACCCTCTTTCCCATTTTCCTCTCGTAG
Seq C2 exon
ATTATGCCATGAATCAACCCGATGTCTTATCTCAGATTCAGCCAGAAGGAGACCGCAATACAGAGGACCAGACTGGGCCAGAGGAGAGTGGGATTCCCACCGACCCCAGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020445:ENSBTAT00000027245:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.821
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=95.3)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCCTGTGACATTCGATGAT
R:
CACTGGGGTCGGTGGGAATC
Band lengths:
238-1235
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]