BtaINT0165515 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018090 | ZNF449
Description
zinc finger protein 449 [Source:HGNC Symbol;Acc:HGNC:21039]
Coordinates
chrX:18910529-18912746:+
Coord C1 exon
chrX:18910529-18910927
Coord A exon
chrX:18910928-18912541
Coord C2 exon
chrX:18912542-18912746
Length
1614 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
GGTTCTGGCATTTCCTCCAGCTC
3' ss Score
6.84
Exon sequences
Seq C1 exon
GCCACTTCAAGTTCCATATAAATTGCACATTTCTGGAAGAGGGCAATGGCTGTGGCCCTGGGTTGTGCAATCCAGGCCTCCTTGAATCAGGGCTCGGTGTTTCAAGAGTATGATACTGACTGTGAGGTCTTCCGCCAGCGCTTCCGGCAGTTCCAGTACAAAGAAGCAGCTGGGCCTCATGAAGCTTTCAACAAACTCTGGGAGCTCTGCTGTCAATGGCTGAAGCCAAAGATGCGTTCTAAGGAGCAAATCTTGGAGCTGCTGGTATTGGAGCAATTCCTAACGATTCTCCCCACAGAGATAGAGACTTGGGTGAGGGAACATTGCCCAGAGAACAGAGAAAGAGTTGTGTCACTGATAGAAGACTTACAGAGAGAACTTGAGATACCAGAGCAGCAG
Seq A exon
GTGAGAAAAGAGGTTGGGATCTTGGTAATTAGACCCAAAGAAGTAACAAGGCAGCTGGGACTGGATCAGACCTTCTGACTGGTACCACAGGATTTCCCTGCTGGAGCTTTCCAATTTTTCCTTCTACTGGAATCAGCATAGGTTCCAGACAGTCTCAACTATTAAACCCAACTCCACTTCTATAACAAATATTTGGTAATGTCCCCTTTACTATCCTAAAATGAAATTTATGAATAATATAAATTACATATACAAAATTAGGGAAAAAATCAATATAATAAGTGCCCTGTGGGCCAAATATTACACAAAGCCTATTTTTATACAACCCACGAAATAGTCATAGTTATTACCTTTTTGAAGGATGGTTAAAAAAAGAAGAGACAACAAACCAGTACTGCAGTACTACCCACAAAGCCTAAAATATTTACTGTCTCTTGACAAGTAAATATTGCCAACCCTGAGTTGAGTAGTCTAGAAGGAATATAAAGGAAAAGGATTGTGATTTCTTATGAACTAATAAGCATTTCATTGTGCATGTATTTGGGCTTGACTGTACCAAAACTTTATGGAATTGTCATTTGCTTGAATCTATGCATAGATACACTGGGGATATGACAGCCAGAACTTCTGAGTGATATGGTACACTCAGATATTACGAGTGGTGTTGCTGCTGGTCATATGATTTCTCAAAGTGACAAACAACTCTTGGTCAATTGGAACAATAAGTAGTATAGTCTTTCTTTGATTGCCAAAGTAATGCTTTTCTAGAAAATCTAAGTCATGCTAAAATATGCAAAAATATTTTGTGTTTATATAACCAACAGGGTGAGATCCTTGACAGGTTCTTTTTACCCACGTGAGTGTTTGAGGGAACGTTGCTAAATGGTTTGGGAAGTGGAACAATTCTTCCTTGTGAATTATATAGAATCCCATCTCTGGCTTAGAACATTCTGATAGCCATCACCTACCATCCTAGGCAAAATGCCCCATAGAGGTGGTGGCATTAGTCTCTGTTCAGAACCATCGAGTGAAACCCATAGCTGAGCAGAGGCAGAATCTTTGGGAGAAGGCAGGAAGTACTTGTGGGTGGGCATTAGGGGCACTCCAGCAGGGGATGTCGATGGGGCTCTGTAGTTAGCCTGCCTGAGCAGGAGTCATCCAAGGTTCCCTGGTCCCTAGGATAGGATGAATTTATGGTTTCCCTTTCTCTGTCTTTCTGGTTTAGCTTAGCATATAGGATTTTATCTTTGTATGGTCTAATCATGCACCACCCAGCACAGTACCCAGCACAGTGGCTCTTAAGCACTTGTAATGTGGCTGTTCCAAAGTGAAATATGCTGTAAGTGTAACATACACAGCACATTCTGAAAACTTAATATGAAACAAGAGTAGGTGAAATATCTCACTAACAATTGTTTATACTGATTACATTCTGAAATTATGATAATTTAGATACATTGGGTTAAATACTGTATGTTGTTAAGATTAATTTTATTTCCTTTTTTGTTTCATATGGCCTCTGGTAAATTTAAAAGGACATGGGTAGCTTGCATTATATTGCTACTGGGCAGGGCTGCTCTGGACTTTTAGTGATGGTTCTGGCATTTCCTCCAG
Seq C2 exon
CTCGATAGGCAAGAAATGCTCTTGGAAGAACTGGCACCAGTGGGAATGGCACACATACCACCAAACATCCACCTGGAGTCACCCCCACTCCAAGTAATGGGACCTGCCCCAGAAGTCCCAGTGGCAGAGGCATGGATCCCACAAGCCGGGCCACAGGAGCTGAGCTTCAGTGCTGCTGGGGAAGGCCAGCCCTTTCTCGACCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018090:ENSBTAT00000024080:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.290
Domain overlap (PFAM):
C1:
PF0202312=SCAN=PU(97.9=79.7)
A:
NA
C2:
PF0202312=SCAN=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
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:
CTGGGAGCTCTGCTGTCAATG
R:
CTTGTGGGATCCATGCCTCTG
Band lengths:
347-1961
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]