MmuINT0180331 @ mm9
Intron Retention
Gene
ENSMUSG00000029729 | Zkscan1
Description
zinc finger with KRAB and SCAN domains 1 [Source:MGI Symbol;Acc:MGI:1921820]
Coordinates
chr5:138535220-138538386:+
Coord C1 exon
chr5:138535220-138535367
Coord A exon
chr5:138535368-138538294
Coord C2 exon
chr5:138538295-138538386
Length
2927 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
AGCCCCTTTCTCCTTCTCAGCTC
3' ss Score
7.93
Exon sequences
Seq C1 exon
GTCCCAGGTCAAGTTCATGGGCCTGAGATGCTTGCCAGGGGTGTGGTGCCTCTGGATCCAGTTCAGGAGTCCTCAAGCTTTGACCATCATGAAACTGCCCAGTCTCATTTCAAGCATTCATCTAGGAAGCCTCGTCTCTTATCCCGAG
Seq A exon
GTAAGAAGCCGGGCTCACTTGTGGAAAGAATTAAATGTTCAGGGCAGAGGTGGCTCAGTTGGTAGGGTGCTTGCTGTTGTACCCATTCCATCCCAACACTGCATAAGATGAGGCATGGTGGTACAGTCCTTTAATCCCAGCGATCTGGAGGCAGAAGCAGGTGCGTCTCTTGAATTCAAGGACAGCCTAGTATGCATAATGAGTTTCAGGATAGCCATAGCCACTTAGTGAGGCCCTGACTCAAAAGCAAAACAAAAAGGCAAACTTGTAACACTCAGGACATGGTGACAAGAGGTTCAGAATTTCAAGGTCATCCTGATCTACACAGCAAGTTTGAGGTCAATTCAGGCAGCCCAGGTCAGTGAAGGGATAAGAGTTTGCCCCATACCCCCAAAAGAAAGGTGGGGAAGTAAATGATCCAAGGTAGAGTAATAGTCCTGTGTTACCAGCTAACGCCACAAAGCACATGCTTGCTTGGTTATATGCTCACAGAGCAGTCCTAGGCTGAGTGTTTACTGTGGAGCTAAGTGAACTGTGTACCATGTACTCGCCGAACATTACGTCATGTGTTAAACTGTGTGCAGTCCCGATGTCCAGCAGAGTTCGGAGTGTAGGGGATTAGCTCTGAGTGTGGTGTTCTATTTCCAGCTTGAATGGTGTGTTTTCAGACAAGATCTTGCTCTATTGCTTGGGACTGGCTTCAAACTCACAGTCTTTCTGCCTCAGCTTCCTGATATCTAGGATTATAGGTGTGCACCACCAGACCTAGCTTCCAGCCTGGGTTCGGAAACACTTTAGTTAGCATTTCTTAAATAATCTTTGTAGGCATCGTAAGCCTTTCTAAAGATTTCATATGTATGTTTGGTTTTTTGTTTTTTGTTTTTTTCAAGACAGAGACTCTCTGTGTAGCCCCCTGGCTGTCCTGAAACTCACTCTGTAGACCAGGCTGGCCTTGAACTCAGAAATCCGCCTGCCTCGGCCTCTGGAGTGCTGGGATAAAAGTGTTCACCACCACCTTCTGGCATAAAATGTTTTATACCGTTCTCTTCAGTCTTCCAAAGGGAAGAGAATGAGAACAAGTCCCCTTTAGACTGAGGAAATGAGAAGAGTAATAGTTGGGGTTTTTATCTCCATAAAAATCTGTTGCATTTGGTTGGTTCTCCAACTACTTTTCAGAAATAGACAATAGTTTTATCAGAATTTAAAATAAAGCAACCACATAGCACATCGGAACACTTGCCAAAAGGCTCAGCAATTGAGGTCTTGCTGTTCTTACAGAGGACCAGGGTTCAGGCTACTCATCTCTGCCTGTAACTCTTTTTTCTTGACTCCAATACACATATAAGTAGACAGACAGACAGACACACAGAGTCTATTTTCTTTTTAAGTTTGTTAAAGAGTTACAGAGGGGGGAGGGGATGGGGGATTTTCGGAAGGGAAACCAGGAAAGGGGATAACATTTGAAATGTAAATAAAGAAAACATATAATGGGGGGGGGGGGGGTAGAGAGAGAGAGGGAGAGAGAGAGAGAGAAGAGTTACAGAAAAGTTAAAGTATGTTCCTTCGCCAGTGTCTTTTATTTGTGAGGTCGTTTAGAAGAGAAATATTAGAGGATGGAGCTTAAAGCAGCGTTCTCTCTCCCAGGCGTCCTGGAAGACAGCCAGCAGGCGTGTACAGCCACTCTATAGGTTTAACTGCACCTGTATCGATCTCCTTCCCCACAAGCAGAAGTTGCAGTGGTATCACTGGGTGTCAGCTGGAGAGGACCCAGATTGTTGCTTCAGGTAGCTAGGGAAATGGTTTTACAGACTGCAAATAGAGTTAATTTTGAAATTGTTATGAATGGATTTGTTCTCAATTTCTTCTCTATCTTGTTCTATCTTGCTTCCTAACTCTGAGAAGGCCTAAGTGCCAGGGTCTTCTTCTTGTCTTTATTTTGCCTCGCAGGTAGTAACAGGTAGACGGTACAGTGATTAAGTGGTCTCTTTCTGTGGTTTTTGGCCGCTCGGACCTATCCTCTGTCTATTAGTAACATTTCCAAATCTAAGATTCTTAGCAAAGGAAGGAAAAGGAAGAATTTTAATTTTACAGTTGAGTTTCTTTATTCTCATTACTCATTGCATATGGTTGGTAGTCATTTGCAATGTTGTGGCTGCCTGTACATTTCTGCATTTGCATGTCTCATCAACATTTGAACAGTGTGTGTTTTATCAAACAGCAACTGTGAGCAAACAGGGAAACAAGGGTCAGAATGGCAGAAATGTACTTAGGAGTGTGACGCTTCCCTTTCTTCCCCGTCCTTCTCAGTGCTCTGTGCGCTTGAAGATGTGTTGTTCACAGGTGTAGGCAGGAAAGGGCGTCTAGTACCCTGGGGGAGTTTCTTTCCGCGCTGGAATAAAGTACAAGCCAGACGCAGAGCTACTGATCCTAAAGCTGAGAATGGTAACCTAGCATTCTAAACTGACACTACATAGTCATCCGCCTCTTCAGGGACTCGTTTTCTCCTTTTAAAGTTTGGACCTGGTGATTTTAATGAGCTTTTATGAGCTCCATGGGGTTCCAATTTAAGAGTAGTGGTCCTGAGGAAGCTTAAGTCTTGCTTCCTTTCAGCTGTATCCTATGGAGCTATCTTTTTTTTTTTGTTTTGTTTGGTTTGGTTTGGTTTGGTTTTTTGGGGGTTTTTTTTTTGGTCCTAGAACTCACTCTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCGCCTGCCTCTGCCTCCCAAGTGCTGGGAATAAAGGCGTGCACCACCACCGTCCGGCTGGAGCTATCTTTTTAAGTAGCTAAATATCAAACAGTGAATATGCTGGTGTAGGAAGGAGAATGCTGGGGTTCTTCACTGAGGGAGGCTCAAAGAAGAGCCAGTTTTACTCACAGCCCCTTTCTCCTTCTCAG
Seq C2 exon
CTCTCCCTGCCACCCATGTTCCTGCCCCTCATCATGAGGGGAATCCCAGAGACCAGGCGATGGCATCTGCACTATTGACCGCAGATTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029729-Zkscan1:NM_133906:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.876 A=NA C2=0.968
Domain overlap (PFAM):
C1:
PF0202312=SCAN=PD(1.1=2.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: