RnoINT0168387 @ rn6
Intron Retention
Gene
ENSRNOG00000021800 | Zfp541
Description
zinc finger protein 541 [Source:RGD Symbol;Acc:1310756]
Coordinates
chr1:77972219-77975694:+
Coord C1 exon
chr1:77972219-77972459
Coord A exon
chr1:77972460-77973842
Coord C2 exon
chr1:77973843-77975694
Length
1383 bp
Sequences
Splice sites
5' ss Seq
CCTGTATGT
5' ss Score
4.27
3' ss Seq
CCTTCCATGTCTCACTACAGGAC
3' ss Score
9.51
Exon sequences
Seq C1 exon
ACCTGGGGCTGGGCACACTCAAGGTGCCTAAAGAGGCTGATGAAGGAGGCAGGGCCACTGGGAGTACAAGGAAAGGCAAGCGGCAGCACAGTTCCCCTCAGAATCCACTCCTGGACTGCAGCCTGTGCGGGAAAGTGTTCAGCAGTGCCAGTTCCCTGAGCAAGCATTACCTGACGCACAGCCAGGAGAGGAAACACGTGTGCAAAGTCTGCAGCAAGGCCTTCAAGCGGCAGGACCACCT
Seq A exon
GTATGTCAAGAGTCTGGCCAGGAGAAGGGCAGGGGGCATGCACCTGTCCTTCTTGTACCCTCTCACCCACCTATCTGCTCCTCTGTTGAGTTCCCACTTCTGTGCTCCTCAGATGTGTGTCCCCTGTTCTCCAGTGTGGACTCTGTTCTCTTCACACTGCTACTGTCTGGGGCAGCTTCATTACTGAGCCTCCAAACTTACATCAGTGAGGAAATTTCTGCCTCCATTTGCAGACATGACTCTTGTAGTTTATAAATGTGATGAGTTATCAGGCATGATAGCACACTGGGGAGGTAGAGGCAGGAGGAGCAAGAGTCTAAGGCCAGCCTCAACTACATATATTACAAGTTTGAGGCCCATACAAGTTTGAGACCCACCTGGATTACATGAGGAAAAAAAAACAGTACAAATGAGGTTGGCTAACTTGGTAAAGAGATGCCCTAAGTCCCCAGTGGGTATCTAAGGACAACAGGTCTGCAACCCCCCCAAAGCTGTATAAAAGCTTAGAGCAACATTCCTTTGTTATTAATGTCTCTGTTGCTGTGAGGCTAAGGAGTGGGAGAGGACAATGCCTAGCTAGAAGGTTGGGTGGAAGGAGAGGTTTTGATAAGTCTACTACCTCTCTCTTGACCCTCTGGTCCAGCCTCACCTTAAGCAAAGGTCATTGAGTCCTTCCCTCACAAGATCATGGACATTCTCTACAGAAAAAATAGGAGTCATTAAAACATCCCAGCCACATGCACTGGAATTGTCCAAAGCTAGACTGTTAGGACCCCAAAGGTAAGAGCTCATTGTTCACTCATATTGTAAACATAAGCAGGAGTAGGCACAACATATATTTACATGCATTTACACTTTCACAGATTATTGACACACCACCTTTGGCTCTAGGAAGGATTATTAACTCTCTGTAAGTTAGTTTCTTGGCTGAAGTGGGAGCTGTTCAAGGAAGCTGTCACCATAGACAGTATTATCATAGTCCCAGATTGGCCTCTCCTCAAATGTATTCTAAGGAGCTCTGCTTCTCAGGAAGCTCAGGTGGAGCTATATGAAAGCAAAAGTTAAAGATGAGCCCCCTCACACACCCAATGCTTTGTGAACCTCCAGAGTAAAGTGGTGTGTGTGCATGTGTGTGTATATGCATGCTTTAACACATCCCTGTTGTACCCAGGTCCCCAGAGCTTACCTCTAGAAAACTGTTGTCTCTTGTGAATCCACTTTGGGGAAACCTGATCTGGCTTCCATTGGATTTCAGTGTTTGTTAGTGATGAGGGCACAGAAGTGAGGCCCTCCCAGTTGGTTTGACAAAGTAGAGGTCCCAAGCAGTTCCTATATTGAGGTGTGGGACCTTCCTGGTGACCTCCCTTCCATGTCTCACTACAG
Seq C2 exon
GACTGGGCACATGCTCACCCACCAGAAGACCAAGCCCTTTGTGTGCATTGAGCAGGGTTGCAGCAAGAGCTACTGTGACTACCGCTCACTGCGCCGCCACTATGAAGTCCAGCATGGAGTATGCATCCTGAAGGAGGCTCCACCAGAAGAGGAGTCCTATGGGGACCCAACCCACAACCATGATGTGGCCAACCAGCCTCCACCCAGTGGCTTGAGGTCCCTGGGGCCCCCAGAAGCTAGGTCCCCAGGCTCTGTCTTGCCCAACCGAGACCTCCTCCGCTGTATTGTGAGTAGCATCGTCCACCAGAAGATTCCTTCTCCTGGCCCAGCAGTGGGGTCTTCTGATACTGAAGCAAGGAGCTCAGCCTGTGCCTGCCCCACCTCATTGGGGTCATCATCATGTACACCGGCCAGCACCCCAGTGGCCCCAGGAACCCTGGGCTCTGAGATTCCTGAGGAAACTCATCCCCCACGAAAGGAAGCTGCCACTGAAATGTTCACAGCTGTCCAGTCAAGAGCAGCTGAGAACAGTGCCCCTGATCCACCAGAGTCAGAGTTAGAGTCAGAGTCTCCACGACTTCAACGGCCATCCTCTCTGGAGGGCTGGCCAGAGGGCAGCTCCCTGCCTGCCTGCCTGCCTCTCTTTAGAGGCCACTCTGTCCCCTCAGGATCCCAGCCTTCCAGCCACAACTTCCAGTGGCTCCGGAACCTGCCCAGCTGTCCCAAGAACAAAAGCAGCAATGTGTTTATGGTCCACAAGCCCTCTGCAGTGGCATCCCGGGAGGGCTCTGAGGGGGGCTCTGGGCCCAGCAGTACCCCGACCTCAGTGGAGCCTTCACCCAGCCTGGGCACCAGCCAGGAGGACCTGCTGCCATTTCCTCCTGCACTCCTAAAGGCCCCTGGTGAGGCCTCCAGTGAAGTCCGGCAGGTAGCTGGGGAAGATGAAACCTGGGCTCCCAAAAAGTGCAAACCCGACTGTGAGTCATTCCCATGGCAGAGCCCCACTGAGCTAGGGCTCCAAGATGCACAGAACCCAGGTGGACTCCCCTCAGATGCCACACCCCTCTTCCGGCAGCTTTTCATGAAGTCACAGGAGTCTCTGGTAAGCCATGAGCAGATGCAGGTGCTCCAAATGATTGCCAAGTCCCAGCGGATCTTCTCCCATACCCAGGTGGCTACAGCCGCAGCCCAGAGACCAGGGCCTGAGGGCAAGCAGTCCACTCTGAAGCCATTGCAGGGGCCATGGCCACCACAAACTCTGCCACCAGTACCCACTGTAGACTCTTTCCAGATAGGCCCTGGACACTCAGAACCAGAGGGATCCCCAGTCCGCAGGAGGAAAACCATGCCTGCAGTGTCCAGAGAAACATCTCCTGGGGGCCCTAGGCGAGACACAAAAGGAGGCCCCAAAGTGGCCTCTGCACCACCATCCCTCACAGGGCCAGCTCTGCACCCCTCCCGGAATCCAGACAACTCTTCCTTGGCCAAAGGGACCTTGGACCTGGGAGACATTATCCCCAGTGCCGGCTCAAGGCAGTCCCAGTTAGGTGGAGATGAGCCATCTGGAACCCAGCTGGTTGGGAAACAGGGGCAAGGAGAGAATGGCCTGGCTTCAGGGGCCATGAGAGGTGAGAAGGGCCCAGCCTGCCCCCGAGGTGGAGGCTACAGGCTCTTCTCAGGGCACCCCAGGGCCCAGAGATTCTCAGGTTTCCGGAAGGAGAAAGTAAAGATGGATGTGTGCTGTGCAGCTTCTCCCAGCCAAGTGGCCATGGCCTCCTTCTCATCAGCCGGGCCCCTGGCAGATCCACCCAGAGACATGAAGTCCAAGCTGACAATCTTCAACAGAATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021800:ENSRNOT00000058241:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.395 A=NA C2=0.814
Domain overlap (PFAM):
C1:
PF138941=zf-C2H2_4=WD(100=29.6),PF0009621=zf-C2H2=PU(65.2=18.5)
A:
NA
C2:
PF0009621=zf-C2H2=PD(30.4=1.1)
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:
GGAGAGGAAACACGTGTGCAA
R:
TCACAATACAGCGGAGGAGGT
Band lengths:
347-1730
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]