MmuINT0180360 @ mm9
Intron Retention
Gene
ENSMUSG00000054931 | Zkscan4
Description
zinc finger with KRAB and SCAN domains 4 [Source:MGI Symbol;Acc:MGI:3649412]
Coordinates
chr13:21570776-21573299:+
Coord C1 exon
chr13:21570776-21571378
Coord A exon
chr13:21571379-21573142
Coord C2 exon
chr13:21573143-21573299
Length
1764 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAA
5' ss Score
6.68
3' ss Seq
AGCAAATGAATGATTTTTAGGTT
3' ss Score
4.22
Exon sequences
Seq C1 exon
TTGAGAATATTGTGGGTTTAGGGTGGAGTGCAGAAGACTAGGATTGTAGGTGACACCTCTGCAGCTGTGCCTTTGGTGACCCAGAGCACGAGGGGAGGGAGGAGATAGATCTAGTCTGAATTCCCATCTTGCGAGAATCTTCTGCAGATACAGCTTGTAGCTAGAGGAGCCTGGAGTTGGCACAGAATGGCTAGAGAACCCGGAACGTCCGCAGCCCTAAACGCTCGGTCTGCAGAAGAGGGCACTGGGCTTCTAGTGGTGAAAGTGGAACAGGAAGAGGCCTCCCCCTTGGCAGAGGAGACCAGTTGGCTGGGCAGTCCTGGGCCTGACCGCTCCCGCCAGCGCTTCCGTGCTTTCCGCTACCCAGAGGCAGCCGGACCCCGGCAGGCGCTGAGCCGGCTCCGCGAGCTCTGCAGACAGTGGCTGCGGCCAGACATGCACAGCAAGGAGCAGATCCTGGAGCTGCTGGTGCTGGAGCAGTTCCTGACCATCCTGCCAGGGGAGCTGCAGACCTGGGTGCGCGAGCAGCACCCCGACAGCGGGGAGGAGGTGGTGGCGCTGCTGGAGTACTTGGACAGGCAGCTGGATGACACACCTCCACAG
Seq A exon
GTAGAAGGAACAGGTTTAGTTAGACCCATGTCCTGTGCCTTTCAGAAACCAAGCAAGATCCAAGGAAGGCATTGCTTAGAGCCCGCAAAGTCTGTCTATGCTGGAAACCTGAGGCAACCAGCGAACTGACCTGGGCCCCTCAGGATAGTTAATCGCATAAAGGAAAATAAAAGGATTGTGGAAGAACTCGTTCCTAGTGAGGCTGGGGTAGAATGTGCCGAGCAGAGTGCTGAAAGGTTACATATGTACTTCTTGTTGTGTGGTGAGTAAGACACGAGGACAGGTTTGAGCAGTGGAATAGGCACAAATGACTTTGTAGGTGTTTTATTGGCTTGTCACGTGAAACAACATCTGCCGTGGCTTGCTGGCAGTCATATGATGCTTATGCCTCTCACACACACACACACACACACACACACACACACACACACACACACACACACACACAAATGTAGTTCTTCCTTTGACAGTGGAGAGGAATTCCACAGTTTTCTTAGAGCCTAGAATCTAAGAGTTTTTTTCTAGCCAAATTCTTGTATACCTTGTTTAAGAGTTTGGTAGAAAACAGGGTGTTTTTTACCTCTATCTTCTGACCTAAAGCAAAACAAAACAAAACAAAACCTTTTTCGAAATTTCATACACATCAACACTCCGTCTCCATCATATTCACCAACAACTCGGCTTCAATTTCCTCCAGCCACCACATATCCCCTTCTCCCCTTCATACAACTCCCCCTTTGTAAACTACCAAGTTCCATGAGTGCCACTTGCTGTCCCATTGGCTGATCGTGTTGTTTTGATCCTGTGCAGTAACCATACTGTCAGTGAGTTTATGGGTCAGTACCCATGTCTTTCCCAAAAGGTAGCTTTTTGAATTACACGTCGCCATTCCCCAATTCTTACGATTTTTCTGTCCTGTCTTCCACGAGGCTCACTGAGCCCTGGGAGTCAGGGGTTGATGTCGATGTCCTGTTTGAGGATGAACACTGGATAGTCACTTATTCTCAGCTCTTGGGCCAGTTATGAATCTCTGAATTAACTGCCACTGACTGCATAGAAAATCATCTCTGGCTATGGTTGAGGGCGACACGAACATGTATAAACACACTCTGGCCTGTTTTAGGGGATTTCTTTTCTGCAACCCCTTGTGGCCAGGAGACCAAGGTTCCAGACTTGGAGTTGTTGTCCTGAGCTCTGTAACAGTGGGAAGTCAATTCAAGTCTTAGAACTTTATTCTCTGAAAAGGATGTAGGAAACTCTGAGCATCCGTTTGCTATCAATGTCTGCCAGGAAACGACTTTCAGGAGGCTGCACTGCCTGTCTGTTCTCTGTTACTTGGCTTCACATACTGCAATTGAATTTGTTAGTTTCTTAAAAACCCCATTGGGTGGAAATTAGTATGCTTATTGTTTTTAGAGAAATGTTGACATTTTCGTATATTTTCCCATCACCTTCGTAACGACAGAGGGACAGAACAAGGAAGCAAAGCCATGGTTAATCCACAGGCTGTGCAACTGATCTGCCTGAGCTCCCATTGCAGCACTGCTACTTAGAAGCTACAAGACAAGGACGAACCGCTTAAACTGGGCCTCAGTTTCCAGTTACAAAATTCCAAACAATTCCAAAGTCCACAGGCTCTCTGCATTTCCATGAGTTATCATTTTCATGAAGCTCTTAGAATAGTGCCTGATAATATTGAGTCCTCCGACAAAGTGTGATGGGAAAGTTCAATTGAATAATAAAAAGCAAATGAATGATTTTTAG
Seq C2 exon
GTTTCAACGGGAGAATGGAGTCGCGAACTTCTCTGCTGCAAGGTGGCAGTGGTGACACCATCCCAGGACTCACAAAGTAGCCACTGCCAGGCAATGAAGTCACTCTTCAAGCACGAATCTCAGGAATCTTTGGAGTGTTCGCCCTTACAGGCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054931-Zkscan4:NM_001039115:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.331 A=NA C2=0.208
Domain overlap (PFAM):
C1:
PF0202312=SCAN=PU(97.9=67.6)
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
Rat
(rn6)
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:
CTTGGCAGAGGAGACCAGTTG
R:
CAGCAGAGAAGTTCGCGACTC
Band lengths:
354-2118
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: