RnoINT0168165 @ rn6
Intron Retention
Gene
ENSRNOG00000014712 | Zfp39
Description
zinc finger protein 39 [Source:RGD Symbol;Acc:1306633]
Coordinates
chr10:45220282-45225595:-
Coord C1 exon
chr10:45225503-45225595
Coord A exon
chr10:45223925-45225502
Coord C2 exon
chr10:45220282-45223924
Length
1578 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
CTACTTCTATTTTCTTTTAGATG
3' ss Score
10.57
Exon sequences
Seq C1 exon
GACACTGCGTGACCAAACCTGAGGTGATCTTTAAGTTGGAACAAGGAACTGGGCCATGGAGAGCAGAAGACATTCCAAAGCAGAGCCGACCAG
Seq A exon
GTCAGTGACTGTACCCTGGACACACGGACGAGGATGAGCAGACTCTCACAGACACTGGCCATGCCCAGCTCTTCTTCCTGAGGTGCCGCTCCTAGTCTTGGGAACAGCTGGTGTGGTAGCTCACATATTTCCTGTGTGCGCTCTCCAAGGAGAATGCTCACGTGACCTTTTACTCTCTTTTTTATTTTGTTGCGTATGTTTTCTTTAACTGTATAGAGCTTCATAGACAGCTTTGGTTATCTGGTTAGCTGCTGTCTCTACATTCTCAGTTGTCTGTGTTTTCTACTCGAAGCATTTTTGGCTGGGTTAGTTCTTTTATCACCTGGATTTGGTTCTCTCCTAAGCCTAGCACGTCTAAAATTAAACATGCAAATAACAATAAATAGATCTGCACACAGAGAGCTTACATTTTGTTGAAAGAAATTAAACACACATAATATTTGGTTATAAGAGTCACAAAGGATGCTTTATTATAAAATAAGAAATAGAAGTGTTCACTGTTTTATTCCAGGAAAAGTCTGAAGGTAAGAGAATTTTAAGGAGACTGTTATTTATTTAGTTAAATCTTGACACTTATTTTTTTCCAGTATTTGGTATATCTAATACATAGGTGGGCATAATATAGAGATTTGTCTTAGTCCTTATAGATATGGAAATTGGTAGCTTAATATAGATATCAGTGTCACAGATTTTCAGGCATTAACTGAAGGGTTGGTGAGGAAATCAGAGAAAGACACCCAGTATCAAGTCTCCTATCCCATGAGGTAGAATGTATGCGAGTGAGGAGTGCTCAGCATGGGAAGGGGGAAGCGAAGCTTGACAGGAAAGTGGAGTTTAAGTGGAGCTTAAGTGAAGTAAGGCTTTCCGGTTGAAAGGCTGAGGTTTCTGTGTCTGTGTAGAAGCTGTTGTCAGCAGTCTTTGAAAGTAATTTGAAGACAATAGACTTAAATAGAAGACCTCATTTATAATATAGAAGACAGCTTAATACAAAAATGGAAGGTTCCAGAAGCAGAGGGTTACAAAATAGAGCTGCATGGACCTTCATCTAAGTGAAGAATGACAGCACAGTGAATCCCAGAAACATCCGGAAAACCTTCCAACAATGGTAGGGCTTAGTATCCTGAATGAAGTCCACTAGTCCAGCAAGAGGGCAGACTGGAGCTTCCTGGCCCCATTGAGGTTCTTGGAAGCACAAAATAGATTTTGTTTAGGAATTTGGAGGGTTGGACTTTGCTGTTTTATATGGGAATAGGTCATTTGTGTCTGTAAACCAGCCCCCTCAATTTCTACTGTGGCTCTTTGTGGAGCAGTGAAAACTGAACACACAGATAGCAGCCCCTTCCTAAGTCCACACTTAGGTGAAAAAAGCCGTGCAAACCTCCATCCTCAGATGGCTAGCTGAGGAGTATCTGACCGTATGATTTTTACATTGAAAAGTCTACGTTGTGGACTACTGGGGACACATCTGCATATATCATATATCAACATTATTGTTAAATCACAATGGAATGAGAACAAGAAGGCAGTTCTTCATTTTTATGATGTAACATGAGCTTGGCTACTTCTATTTTCTTTTAG
Seq C2 exon
ATGTCCGGAAAGTAAGGGAACTGAGTGAAACCAACCAGGACAATGAAGAGAGACACTTGTGGCACTTTGTAATTACCAACAGCAACACATCAACTCAGGAGAAAGTTAAATTAGGAAACATACTTAATGTGGGCTCAAACCGTGTTTCAAATCGGACTATAAAGAATGGAAACTCCTCAGGAATGAGGCCTGTGACACTTGGTGTATGGCAGAGCGCATCTCCCTCTAAAGAGCCCAGTGACTTGCCGACTGGAGAGGAACCTGACGGCTCTCTAACCAGCAAGCCCCCCATGCATGCAGAGCATCATGGGTTGTATAACAGAGCTCCAGGTACTGGACAGCATTTTCAATGTTGTAGGCAAGAAGCAACCTGCAGCACAAAGGCATTATGGACGAACAAGGGGTTTCACGTTGCCCATAGGTCTAGTAAGTTTTCCGAGTCCGAGAAAGCACCTGATGAGGTAGCCCTTAATGCCCAAGAGATGAGTTGGGTATGCAAAGAAACTTTTGAATGTAGTATTTGTAAGGAAACATTCTGTACAAAGTTTAAGCTCACCAAACATAAGAAAATACACAAAGGACAGAAATATTTCACGTGTAGGGATTGCGAGAAAACTTTCATTAATACATCATACCACAAAGACCAGAGGATACATGTGGGAGTCGGGTCCCATAGATATAAACAATGTGAGAATTGCTTTCATCAGAAAAACCAGCAAAGTGTGCACCAGAGTGTCCCCAAAGGATCCAAACTCTATGAAATGTATCAGTCTGAGCAAAGCTTCAGTGAGAAGCCAAATCTCAGATGCTGTCAGAAGACCCGTGCAGGTTATAAACCCTACAGATGTAACATGTGTGGGAAGTCATTTTACCGGAAGTCACACCTCAGCAGGCACCAGAGAATTCACACAGGTGAGAGACCCTATGGTTGCAAAGAATGTAAGAAAGCTTTCTTCCATAAGTCCTCCCTCACCATACATCAGAGGACTCACACAGGTGAGAAGCCCTATGAATGTAAAAAATGCAGGAAAACCTTCTACTGTAAGTCAGACCTGAATGTCCATCATAGAACTCACACAGGTGAGAAACCGTATGAGTGTGACGAGTGCAGGAAAACGTTCTACTCTAAGTCGCACCTCATTATACATAGGAAAATTCACACAGGCGACAAACCCTATGAATGTCAGGAATGTCAGAAAACCTTCAATCGTAAGTCAAACCTTACTGTACATCAGAAAACACACACTGGGGAGAAACCTTATGAATGCGATGTGTGTGGGAAAACTTTTCACCGTCAGTCACACCTCAGCATGCACCAGGGAATTCACAGCGGCGAGAAACCCTACAAATGTAAAGAGTGTGGGAAAGCCTTCTACCAGAAGTCGAGCCTCAGCAGGCATCAGAGAAACCACACAGGGGACAGACCATATGCCTGTGAAGAATGCAGGAAAACCTTCCTCCATAAGTCCTCCCTCACTGTCCACCAGAGAAGCCACACAGGCTATAAACCATACTCGTGTGAGGAGTGCAGGAAGACGTTTTACAGTAAGTCACATCTCACCGTTCATCAGAGAACCCACACAGGCGAGAAGCCCTATGAGTGCAAGCTGTGCAGGAAGGCTTTTCACCAGAAGTCATACCTGAGCAGGCATCAGATCACTCACGAACGTGAGAAACGATTTGAATGTCAGGAATGTAGGAAAAGGTTTTATCATAAGTCCTCCCTCACTGTACATCAGAGAATCCACCTGAGGGAGCACCTGTGAGTCTAACGTGGGAAGTTCCGTTAGCAGAAACCATCAGCAGGCATCAGAAAAGGCACATATACGGGGTTTCCTATAAATGTGACAGTGTGGACGATGTTTTTGCAAGAAGGGACTTCACAGGTGTTAAATTTATACAAAAAATTCTGTGTGGCACAAGTTGGCTGTCTTCTCTGGAACACAGTCTCTATTATGTGGTCTGTGTGACCATGTAACAGCCCTACACACACACACACACACACACACACACACACACACACACACACACACACACACACACACACGATCATTACTTTCATTTCAGCCAGTCCCACAGAAATACTTTTTAAGTTTTTCCTCCTCCCTAAGTTCTCATGAGCTCTGGACCTGAGATGTATGTGACCTGCAAGACAGCCTTGAGATCCATTGTCAGAAAGTCCCCGATTTAAGAGAAATAGAACTGACTGGAGATAGCTCATTTTTATCCCCAAATACTCCTTTTTTTTAAAATCCCCAATACTTTTTTTTTTTTTTTAGTTTGAGGAATACTTTCTCAAGCCATTGGGCAGATACTTTTATAAGAATGCACTAATTCACTTAATACAGTTGGAAGAACTTACATGCTCTTTAATATTTCAGAATTTGTACACAGGGGAAACTTGGGCAAATTGAGAATTCTTTATCAGAGATATTTCATTGAACAATTTGAATAAATCAAATAGAGTAAGTCAACACACGAAACTTTGAACAAAACTTCCGTGTCAGAAGTCTTTGTAATATTAATATTAACTTTCAAATGGAGGCACACACGTGTCAATAAATATGAGTGATATCATTGTCAGAGCACATTGTGTCTGGGAACATTTGTGGTTTGTAACCGGAGGTTGGAGTTGCTACTGGCATGAAGTAACAGGGGCCAGCCGTGCTGTTTAAACAGCCTGTACTACACAAAACATTCCCTCATTCATGTACAGATTTGGATACAGATATTAATGGAAAATTCCTTCGGTGGGACCTAGATTAATTATCAGAAATGTGTTCACTTTGTATACGTCTTGCTTTGTTAAACAGGGAGTGAGGCACAAGTGTAGCCCAGTGATAAAATGTATGTGTAACATTCACGAGACCCTGGGTTTCAGCCTCGATACATACATGCATAAACTAAAACCGAAAAATTTATACATCAAATACCGTTCTAGCACATGTTCATATTTTCTCAACTAGCGCACTCTCCCCACTTTGTGCAAGGGTGAATAAGTGTGTGTGGACATTGCTGTTTAACTGTCTCTTAAGTAAGCAAGACTTTCTGGTGTGCAAAGCTAATATAAAGCCTGCCAGTTGACCTAATAGAAATATTATCTGTGTAGAAATGAACAAATGAAGTCCCTGAATTGTTCGCAGCTGACGACACTTAAAGAGACACGAACAACAATTCTTTTTTTTTTTTCTTTTTCCTCTTTTTTTTTCCGGGGCTGGGGACCGAACCCAGGACCTTGCGCTTCCTAGGCAAGCGCTCTACCACTCAGCCAAATCCCCAGCCCCACGAACAACAATTCTAATGTCGGCTTCAGTGCTCTTAGTGAGCAACAATTCATTTTGCATTTATTTGTGCCGCCCCATTTCCTACACTCCGCTCTCCACATGAAACCAATGAACGGAAGTGGCTGCTCTCGTAGGTTTCTCCAGGAAATTTAATTTACCTAGCTCTCCTGGAACACCTCTGTGTCACCGACAGCACAGTTCTTTTGTCACTACACATTTTGCTCTAGCCCTCAAGATGTTTTTACCCTACACTCAACAGCCTTGAATAAAACACTTTTTGTCTAACATACAAAAGCGTTTTCTCTTATAAATCTGTAAGTCTTGGTATTTGAGACTTGTGTCTTAGGATCAGCGTGTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014712:ENSRNOT00000019991:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.406 A=NA C2=0.209
Domain overlap (PFAM):
C1:
PF0135222=KRAB=PD(0.1=0.0)
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=4.4),PF0009621=zf-C2H2=WD(100=3.9),PF134651=zf-H2C2_2=WD(100=4.4),PF134651=zf-H2C2_2=WD(100=4.4),PF134651=zf-H2C2_2=WD(100=4.4),PF0013017=C1_1=WD(100=10.9),PF134651=zf-H2C2_2=WD(100=4.4),PF134651=zf-H2C2_2=WD(100=4.4),PF134651=zf-H2C2_2=WD(100=4.4),PF134651=zf-H2C2_2=WD(100=4.4),PF0013017=C1_1=WD(100=9.2),PF134651=zf-H2C2_2=WD(100=4.4),PF134651=zf-H2C2_2=WD(100=4.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGACATTCCAAAGCAGAGCCG
R:
TACAACCCATGATGCTCTGCA
Band lengths:
342-1920
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]