BtaINT0117181 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006095 | PRDM13
Description
Bos taurus PR domain containing 13 (PRDM13), mRNA. [Source:RefSeq mRNA;Acc:NM_001193010]
Coordinates
chr9:50873669-50879342:-
Coord C1 exon
chr9:50879222-50879342
Coord A exon
chr9:50875396-50879221
Coord C2 exon
chr9:50873669-50875395
Length
3826 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCG
5' ss Score
9.67
3' ss Seq
TTTCACTGTTTCTCGCCCAGGGG
3' ss Score
9.01
Exon sequences
Seq C1 exon
ATCTTCTATCGAGCACTGCGAGACGTCCAGCCAGGGGAGGAGCTGACCGTGTGGTATTCCAACTCCTTGGCGCAGTGGTTCGACATACCCATCATTGCTACTCCAACGCACGACGAGAAAG
Seq A exon
GTACCGCCGCTAAGAGAGCCCCCAGGGCCAGCGCGGGTGGGTGAGAGTCCAGTCCTCCTCCTCTGGTCTTTGGGCGGGGGGGCGGGCAACCCTAGACCTGAAAGGCCTTTTTCTTGCTCTGTGTAAAACTGAATTCATACTCCCAGTCGGAATGGGCAGAGGCGACGTCACCACTACTGCCTTTAAATCAACAGTAAATGCTAACAGACCATAGTAATCTCGCTCTTGATGTCAGGGAAAAAATACTCATAAATTTCATGCGGGTCGTCCTTTCCGATAGCATATCCAAAGAGACAATTATTTACTTACTTAAGAATCCATAAAGATGCCTTAACATATTATAAGGGTAACTACATCATGAGCTCCAAAAAATGTAACTCAAACCTGGAATGCTTTTAGAAGGTGATGGGGATCTCTTCATCGGGTTTGGAGGAGAGTAATGTATTTCTACAGAGTTTTAGAAGCATTATGGTACTTACAGCTGGTCAGTTGGCAGGTACTGAGGCCCTTCCGTTTAAATGGTATTTATTCATTTCCCTCTCCCTACTTGAATCGAAACTGGGATGTATCCCAGTTTCTTCTCAGATTTATTTGATCCCTTCCAAAGCCCAGAGAGGATTCATGCAAATTAAGGTGCAGCAAGTAACTAAAGAAAGAAACAGTTTCAAACCTCCTCTAGGACACTGAGAAACACTTTCTGTGGAAAAAAGCTGGAAGGTGCTAAAATAGTTAAGATCTCCAGACTCCCTTTTATTGCACAATGCTTCTGTGATTTTCTTTTTTCTTCACCAGTTGTTTTAGTTTGTAATTTCTTCTAAAGACATAGTTATATTTAAAGTCAACATCACAGATGCTGTGAAATATTTTGACACATTCTCCTGAATCACCTGCTTAATCTCATTCCTTTAGAAACAGAGTTAAAGAACTTAATACAAGTGTGGGATTTAAGAAACACTTCATGAATAAGACAGAATGAAATTAATTCAAAATGATGAATCACTTCACTTCAGAGTATCCTTGTCCTCTGTAAATTAATTCTATTGATTTTGTGGGTAGACCTGTATGTACTGTTGCTGCTAAGTCTGCTGCTAAGTCGCTTCAGTTGTGTCCAACTCTGTGCGACTCCATAGATGGCAGCCCACCAGGCTCCCCCGTCCCTGGGATTCTCCAGGCAAGAACACTGGAGTGGGTTGCCATTTCCTTCTCCAATGCATGAAAGTGAAAAGTGAAAGTGAAGTCGCTCAGTCGTGTCCGATTCTTAGCGACCCCATGGACTGCAGCCCACCAAGCTCCTCAGTCCATGGGATTTTCCAGGCAAGAGTACTGGAGTGGGGGTGCCATCGCCTGTATGTACAGTATTCATAAAAGTTTCCCTAGATTTTTCCTTCTATCACATTATATTACATTCTCTTGTCAACTTCTTCCAGTAAGAGAGAAACATGACAAAAGCCCCATAGTGGAGAACTCTCAAATCTGTCACTATAGAACAATTCCAAGGACTACTGGCCTTTGGGGGCCAGGAATTTTTGCAAAGGACACCCTTTCTTAGACACTCTCAAATAGTACAAAAGCAATTTGTTTGAGTGGTGGCCCTCATGTTTTCATTTCAGTCAATAGAGCCTATAAACATCATATGGTCACAGATGTCAGAACAGACACCATTTCCCTTTTGGGGAATCTGTAGGTTATTTTGAACCCTGATTTCTCCAGCTTTCAGATGCTTGAAATCTTGATAACCTTGGAGATGCATCTGAGAGAGGAGGCAAAATCACTTACAAGGTGTGTTGATATGTTTGGCACAGGTTGGATTTCAGAATCAAGAGAACAGATCAACTCATTAGGATAAACTAAAAACACATAATGAAACAAAACATACATTGGCTTAAACCCTGAAAAGAGGAAGAAATAAGTAGAGATGGCTGCAATTCTTCCAATATTGGCTAACCCTAGTGGGTTTCAATTCCATAGTAAGATTAAGGAAAATACTGACTCTTTGTTTTAGGAACAGAGCTGAGTCACTTTGGGGTAGCCTCTGAAAACGCCCTCTTTAAAAAGGGGTGACGAGAGGGAGGTTCTGAACTTAGCAGAAAGGAGGTTACTTAAGATATTAAATCAACACACCCACCAAGAGAACTGAGAAAGTCTTCCCTCTCTATGAAGACTTATTTTACATGGCTGTTCAGTACAACAGACATGATTTTTATCATTGAAATCATTGGAATGACTTTTATCTGTCTTCCATAAACAATGAGGATAGGTCACATAGGCAAATCATCTTCCTTTCTCCGTTTTCTTTCTGCTGTACCTTAACTTCAGCTACAATAATCTGCTCCTTGAACTTCCACCTTAGTTATCTGGAAGGAAGGATGACTTGCTTTATCCAGATTCAGGAGTGAAATACATGAAGAGAGGCATATCTGAAAATTTCTCCCATTGTTGTTTCTGTAGTAATGTTTCAGAAGTTTAAGCTGCTGGTGTGCAAGGAGGAAAAATTTAACTTTCCCATTACATTTAATGAAACTGATGTTTACTTTGTACACTTTCTTGTGGCTCAACTAACTTCTTTCTTATGGACATCCTTCCCTTCAATCAACCAATTATTATCAATAATAATTGGTTATTAATAAACCAATAATCAATAATCCAAGTATTATCAATCAACCACAACATTTAAGAAGAAACCCCACTACAAGCTTGCTTTCTCGGAAGCGATATAACATGACGTTTTAAAGTGAAAATTAACTTCTACCATGTGATCAAAATCTGTTTCATACACATGTCTTTTGACTGTGTTCCCAGACCCTAGCAAAATTAAACAACTAATGTTAATAGTATTAAACACACAAGGTTTGATGCCAAAAGCATGTGTGTAGTCCCTGACAGAGAACCGTGTACTTTTCGAAAGCTGAGTATCTATATTATTCTCTCTCTCTCACACACACACACACACGCACATACATTGATATTTTCCAAGAATTTTACTAAGCTTGGATTTGTGCAGCTATCTAAGAGTTAATTAATAACCAGGTGGAACAAATGACAAGACAATGCATATAATCCTTCTGTTTTTAGAATATGAAGACCTAAGACTTTTTCTTTTCTCCCATCAAATTAAATGGGGTTAAAGAGGAAATAAAGATGCAAATAATTTTGAAGAATAGCAAATCATAGTCCCGATGTGGTCCTTCAGTTGGTCACGCTCCAGGAAAATCTCAAGCAAAGTGTTTAAGACTGGGAGGCGTTGGGGAGGGTGGGTAGTGGACATAAAAGACATTGTTCTGTGAAAAGGAATGATTACATATGGCCCATACATACAGGATATTGTCTCGCCTGGTAATGAGGCGCTCACGACCATTAGATTGGCCTTTGTTCAGTTTATCCAAACTCCTTGACATACGCCACCTATTCTGCAAACACCAACAGATGGGCGCAGGCAAAGCACAGCCCCACACTTGATTTAAAGCAACAGCTGCTCTCGGCTCTTCCCCGGCTCTTTCAAGCCAGCCTCCCTGAGCACTGCCCTTCCAATGAAGATATGCTCGGATGGCCCGGAGAAAGTCTTCGTTGGAAAGGCCCAGGTCACACCTCTCGGTCTCTGAGTAGTCCCAGAGAATGCAGATGCTGACAAAGTTGGCCTTTTGGGGCTTCTCGGCGTCCTTGCTACAATGGGTCTACCGAACTCACTTATTCGCCGGTACCCAAGAAAACTTATGCTTCACCCCATACCTCTGGTCAAAACCTGGGCTCTGCCTTCGGCGCGCTGGCGCTTTCTTTCTCTCGCTTGTTTGCTTCTCACCGGGTCTCCTTTTCACTGTTTCTCGCCCAG
Seq C2 exon
GGGAGGAGCGCTACATTTGCTGGTACTGCTGGAGGACGTTTAGATATCCCAACAGCCTTAAAGCACATCTACGTTTCCACTGCGTGCTCAGCAGCGGCGGGGGCCGCGCCTACCTGCACCACGAGCACGCGGCTCGCCAAGGCGCTGCCCCGGCCGCGGATGGCCTTCGCCTTTCCCCGAAACCCCCGGCATCAGATTTCGCTGCGGCCGCCCCGGCGAGCACTCTTCGACCGCACCCGCAGGTCCCACCGGCCCCTCAGGCTTGCGGAGCGCGGGAGAGCATCAAGCGCGAGGCCTCCTCCGCGCCCTCCGCCACGTCACCGACCCTGGCCAAGTGGGGGCCGTCCAAGAAGGGAAAGGAGCAGCCGGACCGCGCTCTGGACATGAGTGGTCCCGCCCGAGGACACGGCCACTTCCTTGGCATCGTGGGCGGTTCCCCAGCGGGGGGCGGCGGCCTCGCTTTCTACCCGGGCGTGCGCTCGGCTTTCAAGCCTACTGGCTTGGCCAGGGCAGCCGCCGCCGCGCACGGCGACCCCTACCGGGACGAGGGCGGCGGCAAACCCGGGGCCGGCCTGGCTTTAAGCAGGCTGCTGGGTGGGGGACGGGCAGGCGGACACCCGAGAAGCGGGGAGAACCCGGCGGCTGGCGGCGCTGGCCACCACCATCACCACCATGCGCACCACCATCACCATCCCAAGTGCCTACTCGCGGGGGACCCGCCGCCGCCTCCTGGCCTGCCCTGCTCTGGCGCTCTGCGCGGCTTCCCTCTGCTCTCCGGGCCCCCGGAAGAGGCGTCCGCCTTCAAGCACGTGGAGCGCGCCCCGCCCGCCGCCGCCGACGTACCAGGAGTGCGTTACGCGCAGCTGCCCCCGGCAGCCGGGCTGCCCCTCGAGCGCTGCTCGCTGCCACCCCTCGACGCGGGCGGCCTCAAAGGCTACCCGGGTGGCGAGTGCAGCCACCTGCCGGCCGTCATGCCGGCCTTTACCGTCTACAACGGGGAGCTCCTGTACGGCTCACCAGCCGCCGCCGCTTATTACCCGCTCAAACTGCACTTCGGCGGGCTGCTCAAGTATCCGGAGTCCATCTCTTACTTCAGTGGGCCCGCGGCGGCGGCCGCTCTGAGCCCGGCCGAGCTGGGCTCCCTGGCTAGCATTGACCGAGAGATCGCCATGCACACGCAGCAGTTGTCGGAGATGGCAGCCGGGAAAGGCCGCAGCCGCCTGGACGCGGGGACGCTGCCCCCGGCCGTCGTGGCCGCTGGCGGCGCCGGGGGAGGCGGCAGCGGGGGCGGCAGCGGCGCGGGCAAGCCCAAGACGGGTCACCTGTGCCTCTACTGCGGCAAGCTGTACTCGCGCAAGTACGGGCTCAAGATCCACATGCGGACGCACACGGGCTACAAGCCGCTCAAGTGCAAAGTGTGCCTGCGGCCCTTCGGCGACCCCAGCAATCTCAACAAGCACATCCGGCTGCATGCCGAGGGCAACACGCCATACCGCTGCGAGTTCTGCGGCAAGGTGCTGGTGCGCCGCCGGGACCTGGAGCGCCACGTCAAGTCTCGCCACCCCGGCCAGAACCTGCTCCCCAAGGCGTCCGACGGCCCGGGCGCCGAGCCTCACTATCCCCCGGAGCCGGGAGAGCCCAAGAGCGACAACGACAGCGACGTGGACGTCTGCTTCACCGACGACCAGAGCGACCCCGAGGCCGGGGGCGGTGGCGAGCGCGACTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006095:ENSBTAT00000008009:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.503
Domain overlap (PFAM):
C1:
PF0085623=SET=PD(50.0=46.3)
A:
NA
C2:
PF0009621=zf-C2H2=WD(100=4.2),PF134651=zf-H2C2_2=WD(100=4.3),PF134651=zf-H2C2_2=WD(100=4.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]