RnoINT0129326 @ rn6
Intron Retention
Gene
ENSRNOG00000015701 | Rreb1
Description
ras responsive element binding protein 1 [Source:RGD Symbol;Acc:1310904]
Coordinates
chr17:27539148-27544224:-
Coord C1 exon
chr17:27543418-27544224
Coord A exon
chr17:27542446-27543417
Coord C2 exon
chr17:27539148-27542445
Length
972 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
TCTCTCTTTTCATTGTTCAGGAG
3' ss Score
9.31
Exon sequences
Seq C1 exon
ACAGCCAGTCAGACACAGACACACTGACCACCCCAGGTGAGGTGCTGGATCTCACAGCACGGGACAAAGAGCAGCCAACATCAGAGGGAGCCAGTGAGCTCAGCCCAGCTACGCAGGACCTTACAGAAACAGAGGCCAAGGCAGAAGCAGCCCCACCTGAGGAGGAGGAGGAGGAAAAGGGGACGGAGGAGAACCCAGAACCAGAGTTAGAGTGCCGCGTGGAAGAGAGCTCTGGGGATGCAGACGCCCCGGAGGAAGACACAGCCAGCAACCAGAGCCTGGATCTTGACTTCGCCACCAAGATGATGGACTTCAAGCTGGCCGAGAGTGAGGCAGGTGCTGTGGACAGCCAAGGCCCGGCCCAGCAGGAGCCGAAGCATGCCTGCAATACCTGTGGGAAGAACTTCAAGTTCCTGAGCACCCTAAGTCGCCACAGGAAGGCGCACGGCTGCCAGGAGCCCAAGGAGGAGGAGGAGGCGCCTTCGCTGGAGAATGAGAGCCTTGGCAGAGCAGTTGAGGGGCCCTCACCTTCCCCTGAGCCTGAAGAGACACCTGCTGAGTCCTCAGCCACAGATCCAACGGCAGGAACCGGGGAGGCCTCGGGGGAGAGACAGAATGAAGACACAGAGAGTCCCTCTGATGGGGAGGGCACGGCTGAGAAGAGGGGTGACAGTGACAGAAGACCAAAGACAGACTCCCCCAAAAGCATGGCCAGTAAGGCAGACAAGAGGAAGAAGGTTTGCAGTGTATGCAACAAGCGGTTCTGGTCCCTGCAGGACCTCACACGGCACATGAGGTCACACACAG
Seq A exon
GTATGAGACCAGAGCCAGCTTGCCAGAAGAGGTGGCCTGCAGTGGTTAATGGGAGTCTCGCTGGAAGTCAGGTCCAGGGACCACTGAGAACTGGCTAGGTTGTAGGGTTGCCCTTGGAGCTGGGGAAGGTGGGGGTCTTAAGGAGTTACCTCGTTGGCCCTGGAATGCCACAAACCTTCTACAGGGCAGTGGTCCCGCAGCAGTGGTGCTCTGGAAAGCACTTTTCTTTGGCCACTCAGTCCCAGTTTTGTCCTCTGTAGACAGGAAGGATGGCTGGCCTGTCCACGGGTTTCCAGAACAGGACGAGAGGGCATATGTCCATCCAGTGTCATCCTCAGCCACATCCTGAGAAAGATGGGGATATGCCAGGGAAGGCAGGTGGTGGCCTGGCCCATGTTCTGAAGACCCCAAAGAAGGTTCTGTTATTTTAGTGAGGGACAGGGGGAGAGACCTGAATTGAACCATGAAGCCAAAAGATAAACATCTTTCCTCAGCCATCCCTCCAAAGAGCGCACCCCAACCCCTTGACCACCATCATGGCCGCCCATGCACAGTGGCCTGGCCACAGCCAGCTGGGCCCTACACTGAGGCGTAGCATGCTGGGACCTTGTTCTGGCCAGGGATGTTAGAAATTTGATGTGTAAGCTATAGAGGAAACTTCCAAATGCACCTCCTTGTGCCTTGATTTAGGTGGCTGTCCCTGGCCTTGCAGAGCCTGGGGGAAAAGAAACCATTCCTCCTACAAGGCTCTTTGCTTCTGGGGTTCTTTTAAGATGAGTTTGTAGAAAACCTAGTTTGAGAGGTTCAGGAACCAGGATGTGACCCCTCTAGCCTTGTCAGATGGGGCACATAAGGCTCTTCATGGGCATCGAAGAGTCTTGTCCCTGTATACGTAGTTCTGGCGTGGGGGAGGTGGGAACCAGTGCCCTTCGTGTTAATGGACGTCTCCTTTTCTCTCTTTTCATTGTTCAG
Seq C2 exon
GAGAAAGGCCATACAAGTGTCAGACCTGCGAGCGAACCTTCACCTTAAAGCACAGCCTCGTTCGACACCAGAGGATCCACCAGAAAGCCAGGCACAGCAAGCACCACGGGAAAGACAGCGATAAAGATGAGCGGGCTGAGGAGGGCAGTGAGGATGAGTCCACCCACAGTGCCAACAACCCTGCCTCGGAGAATGAGGCCGAGTCAGCTCCCAGCACCAGCAACCATGTGGCTATCACCAGGAGCCGGAAAGAGAGCTTGGCCAATTCTGGGAAGGAATGTGGCCGGGAGGAGAAGGCTATAGCAGAGCAAGCCACCGAGCCCAGTGCCCCCAAAGAGCCGGGGTCTCCAGGTGAAACAGACCCCCAGAGCCCAGCAGCCATTGTGCAAGACTTGCTGGAGCTGTGCGGCACGAGGCCTGCCCCAATCCTGGCAGCCACCGACGGTGCCTCACAGCTCTTGGGCATGGAGTGATGGCCTGCCCTGTCTCCAGCCTACAGTCAAAGCTAGCAGAGCATCCCGAATGTAGATTTCACAAGGTTTTCTCAGCATCCTTCAGTTGTCTGGAGAGAGAGGAAAGAGAAGGCAAGAGAGAGACAAGCCTGCGGCCAACCAGCTCGTGCCATAGCCTTACCCAGTACACATGCACCCGGCCCCAGTACAGCCGGCTTCAGTGCCTTAACTACTTATGGGTCCTCCCATGCTGTCGTGGGTGCCCTCCCCCCAAAAATATGACGTTTTAACAAAACAAATATTTTAATGAATTTTTCGGAGGACCTTTTCATTTAAGCATTAACATTACCTTTTGTATTTGTGTGTTCGAGCTTGTTTTTGTGAATCTGTGACAGTACTGTTTGTTTTGTGAGCTGGAAACAGAAAACCTTCCCCTCGGATCCTGTAGCCAATAACTGGAAGAAAATGATGTGAATCTCTGTACATGACCAGAGGGAAGAGGGAGTGAGGCAGACTTCTAAGCTAGTCCTGTGTTCTCTGTTGCCCTGGTACAGGAGCCTACGACCTGGCCTTTGTTGTTAGTGGGTGTGGTTGAGGCAGGGTTCCTGTGTGGTGTGAACCAGAGCCAGGAAAGTCTAGCTTCAACCTCGCGCGTGTTTCACTCTCCATGTTAGAAATGGTTAGTGTTCAAATTCTTAATTTACAGAGAAAGGGACCTCCCCGGCACCATAGCCTATGGAGGCCATGCCTGGAGGTCATATATCAACGCTCCCTTCTTCCCATTCGGTATATGTTATTAATATTAATATTATTTTTATTTTTACTTCATCAGTTTGCTGGGCTCTGCATTCAGCAGAGACAAATGGGCAATATTTGCCCTGGGTGACCTGTTCTGCTGCCTGGTCCCCGCTTACTGTGCCTGAAGCGTCTGGTGGCACACCAGTGACGGCTCTTCTACTGTACTCAGACAAGCCTTCTTCCGTGACTGTAGAATCAATCCAGCAGGGGCCAGGGGTGGACCTCTAAGCGCGGCCAAGGAGTGGCTCAGAGAGGAGGGCAAGGATGCACAAGTGGTGGGGAGCAGGCATCCGAGACACCAGCCATACCTGGGGCACCTCAGTCAGTTTGCAAGGCACCCCAGTCTTCCCGCTAAGCTGGGTCAGTGCCTTCCCCGAGCTGTGCTACTACCGTCATTTGAGAAGCCGGCCATGAGATACTACTGCAGGTGACGACCTGGAGCGCATGCGCAAGGTTTAGACGGAAGGGTTCTCTTCAGCTTCCTGCAGTGTGGGGTTGTTCTTAAATCCCTAGCTGGCCCAAGCCCCTGGTGCACAAAGACAGGGTTCCTTTAGTTCCCCAATATTCTGTACAAACAGTAGACCTCCCTCATCAGCTAAAAGAAACCGTTTTTCCTACTGTAGCTGAGCTCGGTTCAGCACCCTGTCCTTTAGCAGAGACCCGAGGATGCCTGAGCCACACTGCTACTAGAGCCCTGTGTTTGTCCCTTGCCCGCAGAGCCTCAAGACTTCCCTCGGAGAGGCCTTCCTCTGCTCTATTCCCTTCCCTTATCCTGTGGCTCCTCCGCTAAGACGTGCGCCCCGGGGCACACGTACCCTTTTCTCCACCAGTTTCTAGTGGCTAAAATCCAACCACCCTGACTTCAATGGAGGATAGGTATTCTAGAGATAATGAAAAGTGATATATGTATGAAAAAGAAAACATTGAGGTATATATGATTTTTAACTGTATTCGGGATGTATGGACCAGTTTAAAATTGAGATTTTATTTACTGTAGAGAAAGAAATCAGAACCATTGATCCCATGGTCTTTTAAGTTAAACCCAGCTACATCCCTTAGTTGTTTTTTTTTATTATTATTACAATTGTTATTGTTATTTTCATTGTTGTTATTTGGGGTTTCTTGTGTTTTGTTTTTCTTTGCAACTCTCCACACTAAACTCATGATATTGTGGGGAGAAGCCATGACTGAACTCTACGCTGTGGGAAGATGTAGCAGGGATTGCTCCCAGCAGCGGCCGTCGCCAGGGCTGCCACTGGCAATAATCACTATTGATTTAAAGCTTTATTTAGTCTGATCTGTTTCCTTCATAGTTAATAAGGTCTTGCCACATTTTATTAGAGAGATTGAGAGATGAATTATTTGTTGTCCTGCCCGCCTTCCTCCCCCAATATTAAACTGTGAAGTTTGTGATTTGTTTAAACGCTGGGTGAATCTCTAGTGTTAGTTTGCATGTCCAGCTAATTTGTTTCTATACATTTTTGTTTGATTCTCTTTCTCCTCAGGGCTTTTACAAATATATATATATTATATGTGTGTATATATATATATATATATGGATCTTCTGAAAAAAATTGAGGTGCAAATTTTCTCTTATTGTTTTGTTCTGTTTTTGTTTTTGTTAATGGACACAATATTCAATCACTACATAAAGTACCCGGCTGTGAAACAATCCAGAAAGGCCCCACGGGGCAGTTACCCAAGCAGCTCTGCGGAAGGTCCGAGAGTCGGATGCCGGTTCACACAGATCATCCTGCATTCGTCTCTTTCCTCTCCTCTCTTTCTTCAAGAAAAAAAAAAAGTTGATCCTAATGATTTCAGCCCCTGCATCGAACAGGAAACAATGATAACTGTAGAATTCATATTTTTCTAAAGGGAACTTAAAAACTGCTGCTACGTGTGTACAAAACTGGTTGACGCCACATGAACAGAATCACAAGTTTGGTTTTGGTACTTTCTTCTTTGAACTCAGTTGTATAGAACTTCCAAATCCAGAATGAAAAAAAGCTGTTCTGTATCAAACCATCTAAGCAATAAATGTTATATTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015701:ENSRNOT00000060218:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.926 A=NA C2=0.981
Domain overlap (PFAM):
C1:
PF0009621=zf-C2H2=WD(100=8.5),PF134651=zf-H2C2_2=PU(40.0=3.7)
A:
NA
C2:
PF134651=zf-H2C2_2=PD(56.0=8.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCCCCTGAGCCTGAAGAGA
R:
GTCGAACGAGGCTGTGCTTTA
Band lengths:
345-1317
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]