RnoINT0169486 @ rn6
Intron Retention
Gene
ENSRNOG00000042213 | Zscan25
Description
zinc finger and SCAN domain containing 25 [Source:RGD Symbol;Acc:1308619]
Coordinates
chr12:11774788-11777932:-
Coord C1 exon
chr12:11777809-11777932
Coord A exon
chr12:11775969-11777808
Coord C2 exon
chr12:11774788-11775968
Length
1840 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TGACCTCCTTTAACACACAGGTG
3' ss Score
8.58
Exon sequences
Seq C1 exon
GGTCTGGGGCCATTTAAAGACATGACTTTGGGTTTCCCTGAGGAGGAGTGGAGGCACGTAGCCCCGGCACAGATTGACTGCTTTGGGGAATATGTGGACTCTCAGGACTGTGGCGCCCCTCCAG
Seq A exon
GTAAGACTTTGCTGGCCAGCATGAGGAGGAGGTGTTGGGAGCTGCAGCTTAAGAGTCTTGTCTTAGCCATGGTGCTGCTGACAGAACAGGGTGGGGAGTGTGGAGTCTTGGAGACGCTGGCTTGATACATACCTGGGCTAACAACAGGAAATAGGACGGAACAAGCAAACAGAAGGCAGTGACTGGCCGTGCCAAGGCAGGTTGTTGATGACAACACACTGGTTTTGTGCCCATGGCTGAAGGGCATGGAGGGCTGCAGAGAAAGGGAAGGAGGAGAAGAGGATTGTGGGTCTGATCCATCCACAAATGGTTACTGAACACCCCCTGCAGGCAGGCCCTAAGTGACAGCTTTGGTTTGGTTTGGGATGGGGAGGGGGTGGGGGTGTGCTGGATGGGAGAGTGCAGTGTGCCTGCACCTGTGTGGACAACTGTAGATGGAGGTAGTGATGACGGCAGTATAAAGAGAGTCCGCAGGGGGTGGTCTTCGTAGAAATCCCTGAGTTAAGCTTGAGTACATGTGCTGTACACGTGTACATGGATGCACATACCTGTGCTCATGCCCGGAGGACAGAGAGAAGGGTATCAGTTTGCTCCCTTTACCACTTGGCCTTATTCCTTTGAGGCAGGTCTCTCCCTAAACCTGGAGCTTGAGTTTTTCAGTTAAGACTGACAGTCCTAGTGATCTTCCCTCTGCCACCCACAGTGCTGGTGTTACAGCCATTCCTGCGACCACACTGGGCTCGTCTCTGTGTGCTGGGATCTGAACTCAGGTCCGCTGGGTGCACAAGTGCTCTTACTCACAGCCATCACAGCCATCTCTCCAGCCCCACTGATCTGAGGTAGCAGAACATTCAGTGGGAGAGTATTAAAGTCTGTCATGCAATTCAGTATCAGGACAGGGAGGTGGTAAGGAATAAAGAAAGGTCAGACAGAGTTCAGGGCTCATGCAAGTGGAAGGTGTTGAGGTTGTTAACCAAAGGAAGAGACGAGGAGCCATAGATGGGACAGACTAGGAAGCTGGCTGTGGTTATACAGGCCTCACTCAGTATTGCCTGAGTCTGAGGCCAGCCTGGTTTGCAAAGTGAGACTCCATTCCAGAACCAAACCAAACCACACCCCCCCCCCCCCCCCACTGAGATAAAGGGATGCATTTGGAGACAAAGTCATAGGGCACCATGCTCCTTAGGTGGTCTCTGAGAGTTTTCAGACATGGTTTGATAGGAGGACCACAGTGTCACAGTGGGAGAGGGAGTCTTCAGGTCTGAGGTGGGGCAGCATTAAAAAAGCCGTAGATAGCATGACACAGCCTGAGTATTAGTGAAGGGTAGGGTCTTTCAGTTCCTTTCAGATCCCCAGAAAGAAGTGAGCTTCTGGTTTTGAAGGTTTTGGGTGGTGGTGGTAAGTCCATACTGTGTCCCTAGCCTAACCTAGCGCGGCATGGCCCCTGGCATGTAGGAAGCCCTAGGTGAGAGTTATAAGGGAGCTAGGCTTGCTCACATCTGCAAGTGGTAGAGAGTTAGGGGCTGGCTGCAAGGTCAGACAGTGCTCCAGAGCCGTGGTTCTCAACTTGTGGATTGTAACCCTTTGGAATCACATATCAGATGTCCTGCATATCAGATATTTCCGTTAGGATTCATAACAGTAGCAAAATTACAGTTAGGAAGTAGCAATGAAATAATTGTATGGCTACGGGTCAGCACACACTAGGAACTGGATTAAAGGGGCACAGCATTAGGAAGGTTGAGAACTACCGTCCTAGAGCTGGCAGAGAAACAGGTACAGAGAGGCAGGCTGGGGGTGTGATGGAACATCACCAGTGTTGACCTCCTTTAACACACAG
Seq C2 exon
GTGCTGGGAGCAAGGAGAAGGAGGCTAAGCCCCAGCAAGAAGACCTGAAGAGAGCATTTGTTGGGTTGACTTCCGATGGGTTTGGAGAAGCTGCCATCCAGGTTCCTGTGCCAGGGGGCACCTGTGAGCAGGAGCCTGGGGGCTCTGGGACCAGTGTGCCTGGGCTTCCTGCTCCTCAGCCTGGCGTCCCCCTGCCTGAGGCCCTCAGCGCCCACAGTTCTTTCTGGAAGCCATTCCAGTGCCCTGAGTGTGGGAAAGGCTTCAGTCGGAGCTCCAACCTTGTCAGGCACCAGCGGACCCACGAGGAAGAGAAAGCCTTTGGCTGTGTGGAGTGCGGGAAAGGTTTCACCTTAAGGGAATACCTCACCAAGCATCAGAGGACCCACCTGGGCAAGAGGCCCTACGTGTGCGGAGAGTGCTGGAAGACCTTCAGTCAGAGGCATCACCTGGAGGTGCACCAGCGCAGCCACACCGGGGAGAAGCCCTACAAGTGTGCAGACTGCTGGAAGGGCTTCAGCCGGAGGCAGCATTTGCTGGTGCACCGCAGGACACACACCGGGGAGAAGCCCTACACCTGCGAGTGTGGCAAGAGCTTCAGCAGGAACGCCAACCTGGCCGTGCACCGTCGCGCGCACACAGGGGAGAAGCCCTACGGCTGCCAGGTGTGCGGCAAGCGCTTCAGCAAGGGGGAGCGACTGGTGCGGCACCAGAGGATCCACACAGGCGAGAAGCCCTATCACTGCCCAGCCTGCGGCCGCAGCTTCAACCAGAGGTCCATCCTTAACCGTCATCAGAAGACCCAGCATCGCCAGGAGCCTCCAGTGCAGTGAGCCTACCAAGGGAGCAGCTCTGCCGTAGGAGCGACTGTGTTGCACCGAGGCTCTGGGCAGTGCCCAGTGAGGGACAGCAGGATGTGCTCACGTAGGAGGGCAGAGCCTGGCAAACGGGAAGCTTGCAGAGGCCCAGTTTCGCCCATCACGCTAATTAGAGGGGGAACACTGTCCTGAGCTTCCAGCTTTTTATCTCCTACAGTGGGGATGGGAAACCCACCTCCCTGAGCAAAATTTGGAGGAAAAGGGCAGAATTTTATTGCAAATAGGCAACTTTGAAAGCTCATTTCTTTCCTCCCCTCTCCTCTCTCTCTCTCTCTCTCTCTCTCCTTCCTCCCTCCTCTCCTCTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000042213:ENSRNOT00000039687:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.454 A=NA C2=0.344
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0009621=zf-C2H2=WD(100=8.3),PF134651=zf-H2C2_2=WD(100=9.4),PF134651=zf-H2C2_2=WD(100=9.4),PF134651=zf-H2C2_2=WD(100=9.0),PF134651=zf-H2C2_2=WD(100=9.4),PF134651=zf-H2C2_2=WD(100=9.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTCCCTGAGGAGGAGTGGA
R:
GAAGCCTTTCCCACACTCAGG
Band lengths:
356-2196
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]