RnoINT0081854 @ rn6
Intron Retention
Gene
ENSRNOG00000016462 | LOC102547287
Description
zinc finger protein 728-like [Source:RGD Symbol;Acc:7718701]
Coordinates
chr1:37928102-37931502:-
Coord C1 exon
chr1:37931407-37931502
Coord A exon
chr1:37929496-37931406
Coord C2 exon
chr1:37928102-37929495
Length
1911 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
TCTTAACCTTTACTCACCAGGGG
3' ss Score
6.6
Exon sequences
Seq C1 exon
GTCTTGCATCCTGTAAGCCATACCTGGTCACATTTCTGGAGCAAAGACAAGAGCCTTCAGTTGTGAAGAGACCACCAGCAGCTACCATGCACCCAG
Seq A exon
GTATGTAGGAATTAGGGGGTCAGAGGACAGAGCGGGATATTAGAGATATGATAGAAAGCCACGCTTTCTCCTGATCATGGAGATAACATGCTCTGGTGGAAGTCATATATAAGGATCTCCTTTTATGTCCTTTGCTGTCACAGAAGGACATCTGCCAGATCTCTACGGTGCTCTAAGTCTCTAAGCTTAGTTTGTCCCCTCCAGTGAGCCCTGCTTGTGTTTACCTTGAGTCGAGAGAGTTCTACAGTTTGCTGAGTCTACATTGTAACTGACTTTTTACTGTTTTGTACACAGAAATTCCCATACATTTCTAAAGACCTGTAACCTTAAACATGAATCTCTTCCATGTCATGTACATCCTTGTAAACTACACATTTCTTACCAAGCTGTGAATGATTATTCTGTATTCTAATCACTTTTTTCTACAATATACTCAGTAATAATTTATTTCATTCCTTTTGTGGGTATAACATCCTAAACAAAAACTACACATCTACAAGTATATTTTTTAATAGATCAGAGAAGGTCTTCGGAATTTTGTGGATTCATGAAGTTCTTTCATATTTGGCAGTTCTATGTACTGCATTGCTGTTTTGTACTCTAGGTTGCCTGAAATTATTTCCACACATGCAGTCTGAGGGTGTAATGTCCAATACTAAACACTTCAGGACAATGTAAGATTTTTTTTAAAAAACACGTATGAGCTTTAGTTCTGAACATCAGGACTGTATGTTATCCTTAATGAGCAAATGTGAATCTCATATTTCCATGTCTTATATATTTTGTTATGCAATTCTTTATCTCATGAATAAGTACTCTTACAAGTGGGCTAGCTTATGATATACTCATTGACAGAAATGTTGCCTTTAGAAAATCTCTTGTCCGGGTTGGGGATTTGGTTCAGTGGCAAGCACAAGGCCCTGGGTTCAGTCCCCAGCTCCAAAAAAAAAAAAAAGAAAAACTCTTGTCTTTTATACATGAACTTGAAAGTTCTTCATAATTTTGTATTTTTCAGGAGTCTATTTTCTTGTTATGAAAATGTAACATAAAATACTGTCTCCAACTCTTGAAATTTATTATTTCACATTGTTAGAAATGGTAAGCTTGTTATGAAGCAAATCTTTTCAAACCTCGAAAACTAAAGTCTATTCTTAATATAAAAAGTGTGTATTTCTACATCCATTTAATTTAAGGCAAATAAAATTAACATCCAGATATCCAGGTTTGGCTACTATAGTTGAATAAGGATGTCTCCTCATACATCCTTGTATTTGATTACTTGGTTCCCAATTGGTGTTTCAGCCTTGCTGCAGGCAGTACATAACTGGGATCAGGCTTTCAGAGTTCAAATCCTCCCTGCACTTTTAGTTTGTTCTCTGCTTCATGGTTTGCATTTACAAAATGAGCTACAGCTTCCACTCTAGTCATCATTCCTGCTGTTTGCTTTCATACCATCCTCCATGATGGACTCACAGTGCTCAGAAACCATAAGCCTAACTTAATTCCTTCTTCGCCTTGGTTATGGTATGTTACCACAGCAACAGAAAATACCCGATTAAGATACATTTTCCTTTTTGTACATTTGCCCAATCAAACAGTTTGTTTAGTGGGCTTATTTCTGTTAGCATAAGAGTTTCCCTTATCATTGATAGTATTACTGACTCATTCACTATTTGACTTTGGATATGGCTTCAATGTTTCTATATTCTACTTTCTTTATCTTCCAATAGAAGTTCGTTATTTCTATGTACAGTATTTTCTGAATTTCACTACAGTTAATATAGGTATGGAAATATATTGTAGTTTCCCATTTATCTATAAAAATATGAGTAACTCCATATTAAAGATAAGCATTATAAACATAAAGAATGTTGCTTAGATTTCCTTCATATCTTAACCTTTACTCACCAG
Seq C2 exon
GGGGAAAGCCCTATAAATGTCAAGAGTTTGACAAGGCCTTTGATTGGAACTCACTCCTTATTCAACACCGGAGAATTCACCCTGTGGAGAAACCCTACAAATGTGAAGAATGTGGTAAGGTCTTTAGTGCTCACTCAGCACTTTCTATACACCAGAGAATCCATACAGGAGAGAAGCCCTACAAGTGTGAAGAATGTGGCAAGGCCTTTAGTACTCGCTCAGCACTTTATATACACAAGAAAATTCATTCTGGAGAAAAACCCTACAAGTGCGAGGAATGTGCAAAAGCCTTTTATTTCCCTTCATTACTCAAGCAACATCAAAGAACTCATTCCGCAGAGAATCTCTGCAAGTGTGAAGAATGTGGCAAAGCCTTTTATTTACCTTCATTCCTTAAGCAACATCAAAGAATTCATTCTGCAGAAAATCCTTACAGGTGTGAAGAATGCGGGAAAGCCTTTTCCTATCCCTCAACCCTAAAGCAACATCAAAGAATTCATTCTGGAGAAAAACCATACCGCTGTGAAGAATGTGGCAAAGCATTCCGTAGGTCAACATACTTTCACCAACACCAAAGAATTCATACTGGAGAGAAACCCTACCAGTGTGAAGAGTGTGGGAAAACATTCTACTATCGTTCAAACCTGAAGGGACATCAAATTATTCATTCTGGAGTGAAACCGTACAAGTGTGATGTGTGTGGCAGCATGTTTAGAACCAGCTCAGACCTTTCTAAACACCAGAGAATTCATGCTGAAGTGAAGCTGTATAGCTGTGAAGAGTGTGGGAAAGCCTTTTCTACTCATTCATACCTCATTCGGCACAAACTAGGCCATTCTAGAGAGAAACCATACAAGTGTGAAGAATGTGGCAAAACATTTTGTTATCCTTCAATCCTTAAAGAACATCAAAGAATTCATTCTGGAGTGAAACCTTACAATTGTGATATATGTGGCAGCATGTTTAGAACTCGCTCAGAACTTTCTAAGCACCAGAGAATTCATGCTGAAGTGAAGCTCTACAGCTGTGAGGAGTGCGGGAAAGCCTTTTCTACTCATTCATACCTTATGAGGCATAGACTTGGTCATTCTGGAGAGAAGCCCTACAAGTGTGAAGAATGTGGGAAATCATATAGCTACCCTTCACTTCTTAAGGAACATCAAAGAATTCATTCTCAAAATCCCTACAAGTGTGACATTTGTGGGAAGGTTTTCTGTACTCGCTCAGGACGTTCCAAACACCAGAGAATTCATACCGGAGAGAAACCCTATAAGTGTGAAGAATGTGGAAAAGGCTTTTCTACTCATTCATACCTTACTCTGCACAAATTACTTCATACTGAAGAGAAACCTTACAAATGGGAAGAATGTGGTGAGGTTTTTTATACTTGCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016462:ENSRNOT00000022527:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.121 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0135222=KRAB=PD(0.1=0.0)
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=5.4),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.4),PF134651=zf-H2C2_2=WD(100=5.4),PF134651=zf-H2C2_2=WD(100=5.4),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.2),PF0009621=zf-C2H2=WD(100=4.9),PF0009621=zf-C2H2=WD(100=4.9),PF134651=zf-H2C2_2=WD(100=5.4),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=4.9),PF134651=zf-H2C2_2=WD(100=5.6)
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGAGCAAAGACAAGAGCCT
R:
TTGCACATTCCTCGCACTTGT
Band lengths:
346-2257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]