BtaINT0069911 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004091 | GTF3C4
Description
Bos taurus general transcription factor IIIC, polypeptide 4, 90kDa (GTF3C4), mRNA. [Source:RefSeq mRNA;Acc:NM_001192382]
Coordinates
chr11:102783776-102788833:+
Coord C1 exon
chr11:102783776-102783906
Coord A exon
chr11:102783907-102788744
Coord C2 exon
chr11:102788745-102788833
Length
4838 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGC
5' ss Score
8.8
3' ss Seq
TACAATCTGTCTGCTTTCAGGTG
3' ss Score
11.96
Exon sequences
Seq C1 exon
GTGCTGATTGGACACATCTCAAAGAAGATGAACAAGCAGACCTTCCCTGAGCACTGCAGTTTGTGTAAGGAGATCTTGCCGTTTACAGATCGCAAGCAGGCCGTCTGCTCCAATGGCCACATCTGGCTCCG
Seq A exon
GTAAGCTGCTTTTGCGTGTTTCCAGCCTGTGCCCCACAGACCACTGTCAAGTGTTCATCCAAAGGGTATGGTGCCCATGCCATCAAGCTGGAGAAAAGCTGCTGCCGTAACACCTGCTGTGGTTTTTTTTCCATCTGTTTGACTGAAACCCTTTAGGAGTAGTTTTCTTTGTAACTGCTTGTTTGTAACTGTAATAGGAGTTTCTCTGTTTATTTTGGTAATACTGTATTTGACTTCCCTAGTAGCTCAGATGGTAAAGCAGCCACCTGCAATGCAGGAGACCCAGGTTCAGTCCCTGGGTCGGGAAGATGCCCTGGAAAAGGAAATGGCAACCCACTCCAGTATCCTTGCCTGGAAAATTCCACAGACAGAGGAGCCTGGCAGGCTATAGTCCATGGGGTCACAAAGAGTCGAACATGACTGAGTGACTAACACACAATACTATTTTACTTTGAAGTTAGTACTGAATTTTAAAAAATCATTATGATGAAAGCAAAGGCCATTAAAGTTAATAGAATATAAAGTACTCCTGTACTGTGTTTGGTTTAACAAAGGGTAGAAGTCTTCCCCTTCTCTCTCCTCAGTGTCACTCTGAGAGGACCACTCTGTGGCCCTGTGGGCTGTTTGACACTGTTGATCCCTCCCTTTTCCTCCTCCATAGAGCACCGTTTTATCACCTGGCTTCCTGGACACAGTATCTCCTTGATGTCCATCTTTGGACATGTTTTTCTTCTATCAGCACTCTCCCCACGGTATGTGTGTGCTAAGTCATTTCCGACTCTTTTCGATTCCATGGGCTATGGCCCACCAGACCCCTCTGTCCATGGGATTCTCCAAGCAAGAACACTCGAGTGGGTTGCCATTCCCTTCTCCAGGGGTTCTTCCCAACCCAGGGATGGAACCAAGTCTCCTGCAGCTCCTGCATTGGCAAGTGGATTCTTACCACTGAGCCACCTGGGAAGCCCACAGCATTCTCCCTGGGCTGCCACATGTATCTGTACACTGGTGACTTAACATCACTTTAGTCTGAATCTCTTCCCTCAGTCCAGGCTTCATATCTAAGCACCTGCTCAGTTGCTCTGTTTGGAAGTTTTACAGGCATTTCAAATTTGAATCCAGCTTTTCCACTACCTTCACCTCTACATCCCTGATCCAAGAAACATCATCTCTTGCCCAGGTTATTACAGTTATCTCCCAACCCATCTTCTATGTCTTTCCTCATGCACGCGACATCCCTCCCAGCCCGGACATCTGCGCTGGCCATCCTCTCTGCTCGGACCACTCTTCCAGCAGGGCTTCTTCCCAACCAGGCTGCCTAACATCATGACACCCGAGGACATCCCTCTCCCCTCCTGGTAGCCTTCATCCCTCTTCCTGGCTGTTTTCCTCCTTAGCAGTTATCACTACTTAATATATTTTTTTACTTTGGATTTTTCTCCTCCCTCTAGAGTACAAAGCTTCATGAAGACAGGGAATTTTGTTGTTTTGTTCCTGGCTATTTCGGGAACAATGTCTGATATATGGTAGGCACTCACTAAATTGTTTAAATTTATTTTCAATAGAAACAGGATTTTGCTACATATACTTAATAACTTCCCTATTCTCTTACCAAAATGTTGTGGTTATTTTCTATATCAGTGCATAGATCCCATTCTTTTTTTTTTTTTTTTTAAGTTTTGAATTTTAATTTATATAAATATTATTTCAGATTAAGTTTTACAGACATATCACCAAATCTGGAAGTATTTAGTTTTATTAATGGTTTTTAATTTAAAATTTCTCAGATATAAATATTTTGAAATGAATGCTGAAAGTTGTTCAGCTATACAATTTGACCACGTGCTTACTCATTTAAAAGCATTTTTTCCCATTATTACTTGACTGTCCTTTTCTTTTCTCCCATCAAAATCAGTATGTGACAAGTTTAACTTAAATCCATCTCTATTCCTCCTATCCATAACATTCATTAACACAAATACCAGTACTACTAATAATACCACCTGCTCATTAGTGGATTACAGTCAATATGAGTATTCACCTGGTGCTTATAAATTGTACTGGTTGGTTTAATTATTACAATAATTATGTTATAAACCTCCTAGCATTCTTGAGAATAGTCAGTATACTTCTCACAGTCAGAGAATGTTCAGTGAATTTGCAAGATTTCCTGTTTCATTTACCAAGGATCCTTCTTGAGGTTTTTTATAGGCTCCTAACTTCTTAAAATTTGAGAAAATACCCACAAGGGTCCCAGAATAGGGAATGGGGTTTAGGGCAATATACAAAGCCTCTTCTCATGTATCAGTTCAGTTCAGTTCAGTCGCTCAGTCGTGTCTGACTCTTTGTGACCCCATGAATCGCAGCACGCCATCCGACTCTTTGTGACCCCATAAATCACAGCACGCCAGACCTCCCTGTCCATCACCAACTCCCGGAGTTCACTCAGACTCAAGTCCATCGAGTCAGTGATGCCATCCAGACATCTCATCCTCTGTCGTCCCCTTCTCCTCCTGCCCCCAATCCCTCCCAGCATCAGAGTCTTTTCCAATGAGTCAACTCTTCGCGTGAGGTGGCCAAAGTACTGGAGTTTCAGCTTTAGCATCATTCCTTCTAAAGAAATCCCAGGGCTTATCTCCTTCAGAATGGACTGGTTGGATCTCCTTGCAGTCCAAGGGACTCTCAAGAGTCTTCTCCAACACCACAGTTCAAAAGCATCAATTCTTTGGTGCTCAGCTTTCTTCACAGTCCAACTCTCACATCCATACATGACCACTGGAAAAACTGTGGCCTTGACTAGACGGACCTTTGTTGGCAAAGTAATGCCTCTGCTTTTCAATATGCTATGTAGGTTGGTCATAACTTTCCTTCCAAGGAGTAAGCGTCTTTTAATTTAATGGCTGCAGTTACCATCTGCAGTGATTTTGGAGCCCCCCAAAATAAAGTCTGACACTGTTTCCACTGTTTCCCCATCTATTTCCCATGAAATGATGGGACCAGATGCCATGATCTTCGTTTTCTGAATGCTGAGTTTTAAGCCAACTTTTTCACTCTCTTCTTTCACCTTCATCAAGAGGCTTTTTAGTTCCTCTTCACTTTCTGCAATAAGGGTGGTGTCATCTATGGTCAACTAATTTACGACAAAGGAGGCAAGACTATGCGATGGGGGAAAGACAGTCTCCTCAATAAATGGTGTGAAAACTGGACAGCTTAACCGGAGGTCTTCTGGAATCTGAGACTGGGCCGCGTGAGCTTTCTGCTGAGTTCGTTTTTCGCTGTCCCGGTTTCCAGCACGATGGGCCTTCCCCTGAGTTGGGTTTCTTCGCCTTCCGTTTCTAACGCGGGAGCCTCGCTCAGTTGGGCTCCTGCTGTGTTTGGCCTCTTCTGCGCAGAGGTTGTTTCAGCCAGGTTAAACCCGTGTCACAGCACCACAGATGTCACACGAGTGTACGTTCCCCTGTTCTTTGTCTCGTCACAACAAAGATTTGGAGCAACGGACATTAAAGCCCTCGGTGCGTCACAGCTCTCGGGTCTTGGACAAACCGTGCTATAGCTCTTAGGCAAATCAGTGTTACAGCTCTATTTTATTTAGAAGATAGCAGGAGAGGGAGAGAGAGAGAGAGAGAGAGGGAGAGAGAGAGAAGAGCGCATGCACGAAGGAGAGAGAGTCTCCATAGATCCCATTCTTAACAGCCATAGAGTTTCCCATTGTATGGATATTCCATTATTTCCTCTCTTGTTGACTGATATTAGGATTTTTTTCCAGTCTTTATTGTGTACCTATATTTTTTTCTAATTTAACTGTTCAGACTTATGTTTCAGGGGAGACTAGGAATAGTAGTGGTCTTGTAACAACAGCAACCAGCACCTCTTGGTGCTGCCAGTGTACCAGGCACAACGCTCAGCAGCACGCACATCTCAAGCCACGTGTCGGACACAGATGAGGAAACTGGCGCCTGAGGATGTTCAGTACTTTGTCCACAGTCATGCAGGTGGTTAGTGGCAGAGCTGAGAACCTGGCCTTCTGGCTCCAGAGTTTTCACGTGTAACCTCTGTCCATTGTTGTCTCTTGAATGGCTTCTTCCACAAAGAATGGGTGAGAATGGGTGCTTACTCTCATTCAGGTATAGTCTTTCTTCCTGTGCACCCAGGTCTTTACTCAAGGTAAACCGACTAGGAACTCCTTCCCCCACCTCCCTTCTTTGTGTGCTTTACTCCTTATTGCTCTTCCTAAATCCTGTTAGCTTTCAGAAAACCTTCCCTGCAGAGCCCAGCAGCTCTCTCTGACCTCCCATCGCTCCCACCTGCCCTTACTTGCCAGGTCCTGGCCGATGCTCAGTGAAAGGTCATTGGGTGGAATTGAATCTCTGAGCATTTGTTTATGGCCCTTATTTTTTTGTACCACTAATTGTGTCTTCTGTATCTTTCAAGGTTTCACCACTGTGCCATTAGTCTTAAACATTGTGCTTATACGTAATCTTAAAAATCACTAACAATAATTTCTGATATATAGTTACTTTGTTTAACGTATGAAAAATTCACAGTATAGTTGGGTATAAACAGACTGCATTCTTTCCCAGGGCTGCAGTGACTGTCTGGATTAGAAGCCTTGTATCTCTTGGCTTAGCCTGACATGGGCACTTCCCCTTTACTAAGTGTGTGGTGGGTCTGGCCAGCTGTCCTGTGCAGGGGGATACATGGTTGCCATGAATTTGTCAACCATTTTTGCCCTTCACTTAGTTAACTCATTTTAGAATACTTGTCCGTGGTGAGTTAACCTTCCAACACTGTACTGCTTTCTACTGTTGGTAGCACTGATGATACAATCTGTCTGCTTTCAG
Seq C2 exon
GTGCTTTTTAACCTACCAGTCCTGCCAGAGTTTGATATACAGAAGGTGTTTGCTCCATGACAGCATCGCTCGCCATCCAATTCCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004091:ENSBTAT00000005344:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126602=zf-TFIIIC=PU(43.3=88.6)
A:
NA
C2:
PF126602=zf-TFIIIC=FE(33.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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]
SPECIAL DATASETS
- Pre-implantation embryo development