RnoINT0124824 @ rn6
Intron Retention
Gene
ENSRNOG00000001099 | Rbak
Description
RB-associated KRAB zinc finger [Source:RGD Symbol;Acc:1562875]
Coordinates
chr12:13438512-13442276:+
Coord C1 exon
chr12:13438512-13438607
Coord A exon
chr12:13438608-13439590
Coord C2 exon
chr12:13439591-13442276
Length
983 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
CTGTTCAATCTCCTTTTCAGAAA
3' ss Score
9.81
Exon sequences
Seq C1 exon
GGTATGATGTCACCAAGCCAAACGTGATTATTAAGTTGGAACAGGGAGAAGAACCCTGGACAGTGGAAGGTGACCGCCATGCTAAGAGGCATTTGG
Seq A exon
GTGAGTGAATAGAGTAAAATTTTAAAAAGCACTTCTTCTTAAATTAACTAATTTTGTAGGGGAAGCTTCTGAAAACCTGATGCTTTAGAGCAAACGAGATCCAGAAGCATGAAGGTTCATTTGTATTCAGAATTAAGAAAAAATTGAGGAAAAGACTATGAGGGGACACACGACAGGTTAGGGAATGTAGGTCAGGACATGGCAAGGAGATTCAAGGCTAACATAGTGGGCACTCGCTCTGTGTCGCAAATGTCCACGCCCTGGTGCGGGACTCTAAGTGGGAGGAACTTGAAACTTTGAGAATGTTTTCTAATGTGCCAGGTTGAAAGACAAAGATTTCACTGAGTGTGGTAGCTGAGGTCTGTAGTCCCAAAACTCCAGGTAAGGCAGGCAAACTGCTGAAAGGCCAGCCTGGGCTAAAGAAAAAGAGACTGTTTCAAACAAAAACAAAAGCAAAGATTACAGAAGTGTCTGAGGTATAATAATCTCCCATGAGATGGAGACCCATCGATGGAAATGCACAAGCGTCTAGAGTGCCAGCCTTCCTGCGTGGTGATATATTACCATGGGATAGTAATGACAGTCTGTCTCCCAGACATGGGCCACATTAAACGTTTCTTTTCATATGCCCAATAATGACTGTCCCCTGCTTCCCTTTGCTGCGAGTCCTCCTTCCTGCTTCGTCTGTCTGTGTCCGGTGCCCTTTCAGTAACCGTGCCCTCTGCTCATCATTGCTCAGTCACAGTTGTAAAGATGATATTTGTAATGTAAGGCGCATGTTTCCATTGTAAATTGATTCTTCATTTCTTACCCACCCCCACATATGCATACACACAGATTATAGATTATAAATCAAAGGAAAAGGAGACCTGCACATTCATGATAACTTACTCACAGATTGTCCACAAATCCAGCATCTGGGTGCCACCCCCTCTGTAGCTTGTATACTCGTGTTGACAACATCTGTTCAATCTCCTTTTCAG
Seq C2 exon
AAATCAAAAAAGTTGATGACCCCAGAGAAGGAATCCAGGAAAATGGCGAGAAACATCTGCAGTGCGGTGATGATCTCCACAGCTGGAGAGCGGAGAAGGGGGACGAGTTTGATGAAGCCTGCACCCTAGAACCACCCCTCATTTCCCCCAGCTCAGGCGCTCACAGCTGTGTCTCCTGTGGGAAGACTTTGGAATCTGTTACAGAACTGATTTGCAGTGATGGAAGCTATGCAGTAGAGAAGCCCGACAAGTGTTTTGAGTGTGGGAAAGGGTACAGAGAAAACCCTGAGGACCTTAACCAAAGTGAGGGTAACTCTTCTGAACGTGACGAAAGTATTCTGCAGAAAATCACCATTTTGGAGAAACCCTTTGACTATGAGTGCTTGGAAGCCTTAGACAGGGAAAGTGTTTTCATGGCTCATGAGAGAGCTTACATGGGGGAGAAGCCCTATGAATGGAACGGTTCTGGACCAGACTTCATCCAGATATCAGACTTCAGTACGTATCACAGATCACAAGTGGAAATGAAGCCCTTCGAATGTACGCAGTGTGGGAAGTCCTTCTGTAAGAAGTCCAAATTCATCATCCATCAGAGAGCGCACACAGGAGAGAAACCGTATGCTTGCGGTGTGTGTGGAAAGTCCTTTAGTCAAAAGGGGACCCTCACTGTACATCGGAGGTCACACTTAGAGGAGAAGCCCTATAAGTGCGATGAGTGTGGGAAGACCTTCTGTCAGAAGTTACACCTCACACAGCACCAGAGAACTCACTCAGGAGAGAAGCCCTACGAATGTAGCGAGTGCGGGAAGACCTTCTGCCAGAAGACGCACCTTACTCTACACCAGAGGAATCATTCAGGGGAGAGGCCCTATCCGTGTAGTGAATGCGGGAAATCCTTCTCCCGGAAGTCTGCCCTCAATGACCATCAGAGAACACACACAGGAGAGAAGCTCTACACGTGTAACGAGTGTGGTAAGTCCTACTACCGGAAGTCCACCCTCATCACGCACCAGAGAACACACACGGGGGAGAAGCCCTATCAGTGTAGTGAGTGTGGGAAGTTCTTCTCTCGCGTGTCGTACCTCACCATACACTATAGGAGCCATTTAGAAGAGAAACCTTATGAGTGTACAGAATGTGGGAAAACCTTCAATCTAAACTCCGCCTTCACCAGGCACCGGAAGGCCCATGCAGAAGAGAGAGTGCAGGAGTGCGGTGAGTGTGGGAAGCCGTCCCGGCTGCAGTATCTCCCTGATCACGCTGATGGCCTAGGAGAGAAGCACCACGGGTGTAATGAGTGTGGGAAGACCTTCCTTGAAAACTCAGCCTTCAGCAGGCACCAGCCCGTTCCCGAAGGGGAGAAAACTTACGAGTGTAACATATGCGGGAAGGTGTTCTCTGACCTGTCGTGCTACACTGTGCATTACAGAGGTCATTCAGAAGAGAAACCCTTTGGCTGCAGCGAGTGTGGGAAAACCTTCTCTCATAATTCATCCCTCTTCAGACATCAGAGAGTACACACAGGCGAGAAGCCGTACGAGTGTTACGAGTGTGGCAAGTTCTTCTCGCAGAAGTCCTACCTCACTATCCATCACAGGATCCATTCAGGAGAGAAGCCGTACGAGTGTAGCAAGTGTGGCAAAGTGTTCTCTCGGATGTCGAACCTCACCGTCCACTACCGAAGCCATTCAGGAGAGAAGCCCTATGAATGTAATGAGTGTGGAAAAGTCTTCTCCCAGAAGTCGTACCTCACTGTTCATTACCGGACTCATTCAGGAGAGAAGCCTTATGAATGTAACGAATGTGGGAAAAAATTCCACCACAGATCAGCCTTCAATAGCCATCAGAGAATTCATAAAAGAGGGACTATAAATGTACTTAATGTAGAAAATCTCTGACGTCTCAATTTTTAAAAAGACATATGGTTATAGTGAACATTGGGAGTCCAATAGGTAGTCAAGGGTGCCCCCCCAAACTTTTAATATATGTGGTGCTGGGAACTGAATATGGGCCCTTTGCATGCTATAGAAATTCTGCACTGAGCTGGACTGCAGTGACTCACGAGTTGAGCACCCCTGCTCTTAAAGAGTGTGAAGTCCTAAAACAAAATCCATTTTAACCTGAATTTTCAGAGCAGAATCTGTAAAGATTGGGCAAGAAGCAAACCGTTTATGGGACACTAGGTAATTTTTACAGGAGTGAAACTTCGAAAGTATTTAATATTTATTTTTTATTTAAATTGTATTTACATATCAGGGAGCGTTGCCGAGAACTGTCAGCCGATGAGTATAACTCACCTTGGACACATACGCTAAAAGCCATATTTCTGATGTCAGACCAGGTGTCTATAGACAGGATGCAAGAAGCCGTCAGCTCTGAGCAAAGTTATGAAATGAAATTATAAAGCTAGCGCTTGGCCACGAGGATGACTAAACCACGGCACCTCTGCTGTTCTAGAAGTCGAGCAGCCATTCTATGCAATGTTTGCCATCTCCGCCTCGAACGATTGGTGGAAACCTGGTATCCAGGATTAGCAACGCCTGTTACAGTGGGTCCATTGGTGGGATATGCTATGTGATCGGGAAGTACATAGTTTTCTAGGTCACTGCTTGCCAGGAGAGCGGTTTTGTAAAAAATTTTCAACTGGAATTGAGCAAAAAATTTTTTAAAATACTATTTTGATAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001099:ENSRNOT00000001455:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.295 A=NA C2=0.084
Domain overlap (PFAM):
C1:
PF0135222=KRAB=PD(0.1=0.0)
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=3.9),PF134651=zf-H2C2_2=WD(100=3.8),PF134651=zf-H2C2_2=WD(100=3.8),PF134651=zf-H2C2_2=WD(100=4.1),PF134651=zf-H2C2_2=WD(100=4.1),PF134651=zf-H2C2_2=WD(100=3.9),PF134651=zf-H2C2_2=WD(100=3.9),PF0009621=zf-C2H2=WD(100=3.6),PF134651=zf-H2C2_2=WD(100=4.1),PF134651=zf-H2C2_2=WD(100=4.1),PF134651=zf-H2C2_2=WD(100=4.1),PF134651=zf-H2C2_2=WD(100=4.1)
Main Inclusion Isoform:
NA
Other Inclusion 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:
TGATGTCACCAAGCCAAACGT
R:
CTTGTCGGGCTTCTCTACTGC
Band lengths:
343-1326
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]