BtaINT0069909 @ 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
chr11:102772557-102780793:+
Coord C1 exon
chr11:102772557-102772901
Coord A exon
chr11:102772902-102778981
Coord C2 exon
chr11:102778982-102780793
Length
6080 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
TTTTTATATCTTATTTTCAGGTT
3' ss Score
10.9
Exon sequences
Seq C1 exon
ATGAATACGGCCCTGACCCGGGTGGGGCCCGCGGCCGAGCGGCCCGCGCCGCCCGAGGAGGTGGAGGGCTCTGAGACCGGCGGGAAGGAGCCGGCGGCGGACGCGGCCCCGGGGCCCAGCACGGCGTTCCGCCTGCTGGTGACTCGGCGGGAGCCGGCGGTGAGGCTGCAGTACGCGGTGAGCGGCCAGGAGACGCTGGCGTGGTCCGAGGACCACCGCGTGTCGGTGTCCACGGCCCGCAGCATCGCCGTGCTGGAACTCATCTGCGACGTGCACAACCCGGGCCAGGACCTGGTTATCCACCGCACGTCGGTGCCCGCGCCTCTCCACAGCTGCTTCCTCAAA
Seq A exon
GTAAGTCATGCCCGCCGCCCCGGGCTCTGGGGGTCTCCTGCCCGCCTCCCTTCCCTCCCGCGGCCGCGTCCCCGCGGGTCCCCGGGGGAATCCCCGGGCCCACGCCTCGGCCGGGGATTCCCGCCTCCTCGCACCCTGAGTCTTTAGGGTCGCCGCCGTAGCTTAAGGGGTCGGGGGGACGCCGTGTATGCCCAGTTTCCCGGATCGCCCACCCACTCCCGAGACACAGGTACATTTCGGAAGGTCCCTCTCCGGAGCCAAGTTCTCCCTGCGGCCCGGCGTCTGGCTGGCTGCTGGCGCAGATTTCTTCCCTTGGTGCTTTCTTAGGCTCCACCCCCGTGTTGACCCAACCCCAGACCTGCCTCTGCCACCCGCTCCTATTGTCTGGGGCCTGCTCCCCGAGGCTCCTGGCTGGCTTTGTTTACTGTGATGTGCCCTCCTCTTCCGCCTCCTTGGCTTTGGAAGACAGAAATTTTTTTTTTTTTTTGCTTTGTCTTTAACTGTTTCAGTGACTTTGTTATATGAGTGGTCCTTCTCATCTTGGGCAGATGGATAGATACTGGATGTCAGGGGTTAGTACTCCAGTTTTTCTTCAATAACGAAAAGGCTTTGGGATGTAGAATGAAAAATAAAGCTTCTGGAAATAAATGCAACTCTTAAGATCTTCGTATAGATTGAATGCTTCGTGTAGATTTAGTGCTTTTGGCTTCAGATTAACTAAGTTTGCCTTCAGAACTTTAAAACTGCTAAAGTTTTATTGTTGGAGCATCACCATTTTCAAAATGTTTTAAAGTAGGAAGTCGTGTTGTTCATTTAATGGTTTAAAAATATTAAAACTTTATTACTATTTGCTTTATAGGTCTGTATGCATATGTGTGATTATCAAAATGTACATTCATTCTTTCAACACACCTTTGAATACCACTATGGAAATCTCATGGACTGAGGAGCCTGGGGCGCTACACAGTCCATGGGGTTGCCAAAGGGTGGGCTAGGACTTGGTAGAACTTAGTGACTGAAACAACAGCAACAATGTATCAGCCAGAGATCAATCTAGGCTCCAGAAGTAAAACATTGTACAAAAACAAAATCCCTGTCCTCTTGGAGCTTACATTCATTCTTTTGACAGATCAAAAACAACAATGTAATAATAGGTAGTGATAAGTTGTAATATGTATCTATATACAGAGAAAGTGTTTCTGTGAATATGAAGTTTAAAAAAAAAAAACTACTCTGCCAAGCCATTTAAAATATAGATCAGTGACTGAATGGGGTGCAGAGAACCCACACCACTTTTAGCATACTTAATCCAAGTTTGAAAGTGACAGCTTGATGTTGAATTAGATCATTGATAAGTTTGTATGACTAAATTTTCAAAGATCTTGGACAGGGTGTGACAAATTGATTCAAGTATAAACCAGTCACCTGGAATTTGGTGATGGACAGGGAAGCCTGGTGTGCAACTGTCCATGGGGTCGCAAAGAGTCAGACATGCCTGAGCAACTCAACTGATAAACCAGTCATGTGAATAGATGTTGGTGATCCTATGAAACTGAGAAACACTCAAGGAGGGAGGCAGAACAGAGGGGTTTTAAAAGGTGAGACACCTTTCACCTCTGCTGAAAAGGAACTTACTGATGCTAACTATATGCACATCAGCTAGAGAAAATTTTAAGTGTGTGTCTCAGTGTGGTAGACTTAATGCTTCAGCAGAGAGAATTTAAAGAAGTAAAGGAATGCTGAACCGAGATGCTTTTATTAGGAAAGGTTATTTGGTGGTGAATCTGCAGCAGACCTAAAAAAAAAAAGTAGGGTTTGGGTTGTAAAAAGAAGGGAGAAAGGGGTCATCCAAGTGCCAGGAATAAGGTGCCCATCTTGTGCACAGACACTTAAGTGATGAACACAGCTTCTGGTTGCTTGCGTAAATGATTTTGGGTTCACAGCTGAGGTCAAGTAGCTTTCCTAGAGAGTCGGAGACAGTAAAGTGAGGTCAGTTTGGGAACTTGGAAGGTCAGTCTGAGATGGTTGACTTCAGTTTAGGAAGCCCTGAGGTGCTGTTACAGCGTCATAGATGAAGACTGACCTGGTGTGGTGCAGGAATGTGACTCCCACTGGACTAGAGGCAAGTAGGTGATGGTTGGAGTCAGCATAAAACAGGGGTTAAGAGAGTACACTTTGGGGACTTCCGTGGTGGTCCAGTGGCTAAGATTCCAAGCTCTGAATGCAGGGGGCCGGAGGTTTAATTCCTGGTCAGGGAACTAGATCCCACATGCCATGACTAAGACCCAATGCACCCAAATAAATAAATAAACAAAAATATTTTAAAAAAAGAGAGACTACACTTTGGCACAAGATAGCAAGCCAGGTCTATCTGTAAAAGGATAATAAAGCCTACCTCGTTTAGCATCTTTAGAAGATTAAGTTAAAATATATTATTATATGTGTATATTTATATATATGCTTATATGTCCATATGTGATTACTTAGCACAGTTCCTGGCACACTGTAAATGCTCAGGTTAAAAAATAGTCATGCAAGTATGAAGGAAGGTCTCTGGGTTAATGCTTTGGCTATGGATACAAAGTTATCTCTTATCACTGTATTCTGATAAAAATTTGATTCTTGTCGTTGGTCCTACAACTGGAAAATGAGTAATAGGAAATCCTTATATATCCCTCTAGTAATCGATTGCTTTCCTGAAATTATTCAGTGGTGTCTTCCCCTTCTGCTTTGGTGTGCACCTCACAGAAAGCACCGGTCAGTTGGCAGTCTCATTCGCAGGCCCTGCCTGGGGAATGAAGGCCGAGATGTCCCTGCAGTTCTGAGAGAGGCCTCTGTGGGGTAAAGCTGGAGTAATGGTGGGAGTGTAAGGAAGTCTCTGTCTGTGCTTTGGTGGCACTGCCCACTCACAGGCCCTGTGGACTGAAATCTCTTTGGTGCTGGCCAGTTTGCTCCAACAAGGAAGATGGACTCCTGCAACCTAGATCGCAGTTGCAGTGTGTAGAACTGCTAGACGGCTAGATGCTAAACCTCTTTGAAACTTTTGCTCTGATCGTTATTTAGATTATGAGTTTTTTCAGGAAAATACACAGTTATAATAATAGTTCACATATTATCTGCTCTTTGCAAGTTACTGCCCTGGGCATTGATATAAAAGTGAATGGTATAAATCTGAGAACCAGTGAAGTAGTGACTTAAGAACAAGTTTACAATTTCTCTTCCCATTGGACTGCTGATTTAGTGAATCATCTAGTTGCAAACAGTTCCAAAATCTAATAATACGTGCATGACTACTTTTGTTTGTTTCAGCTGTTAGGAGCTTTAGTAATATCAACGCCATCTACTCCATTAAGTTAAATAACTGTTTCCTGTCTTTGGAATTATATTCCTGCCCTCAAGAAGCTTACTGTCTACGAGCTTCAAGTGAGTTTTTGTTAGGTGCTTACAAAGTATGTGCTGATTAGTTGTCATAGTGGCCAACTAGAAACAGGATAGCATATAGTGAAAAGATTGACTGGGGCTCAGCCTCTGAGAGCTGGACTCTTAACTAACATGCTCCTGGGGCATCTGAGTACTTGTTTTGATTCGTTAACTAGTTTTGTGATGTGAAGAGTTGAGGGGAGGTGCACTAGGTTAATTCAGATTACCTAACATGGAAATTATTGCACAAAACCCTAAGGATTTTCCTTACTGGCTGACATCCAAGCTGCTCTCCATTCTGTCAAGGATTCTTGCTGCTGTGGGTTAGGACCAAGCTTGAGCTTCCTTTATTTCATTCTGTACTGCTGTTTGGAGTTATGCATTCTCTAAGTTTATTTTCAGTTCTATAGTAGTTTCTATTGTAGTAAATTATCCTAGTCTGAGAATTATTGCTTAGTTTGTAGTATTATGGGATTTGGTGAATAATTTTATATCCACCCTCCATTTGGCAGACAACTTAATACCTGCCTAACCTGCATTTTACTTTTATTAGGTCTCGTTAACATTTACTGAATTCTCAGAGACTACGACTACTTGTCATCGTAGATAACATTTATTGAGTATTTATTAATATATGCTTTACATGCATTGACTTAATTAACCTTCCTAACTCTATGAGAATGTGTCATTGCACTCTTTATAGATGAGGAAATTAAAGCCAGAAGGTTTAAACAATTTGCTCAGGGTCACAGAGCTAGTATGTGACAGAGCCAGGATTTGAATCCCAGCAATCTGCAGATTTTCAATCAAATTTTATCTACCCCATACAAAGCTGTGGGCTTTGATTAGCGTCGTTTTATTAACAGACTAGCCAGTGACACCTCTATTTGGAATTTCTGGTCTGTATTTCTCCAGTATATCCATAGGTGTATCCAAGAGACTACCCTGCAATTAAGATACACTGCCTAAGAGCCCATTTCCAGAGTGTTACTTAGGATGAAGAAAGATGACTGCCCCTGCACCGCCCCACCCCCCCACCAACACCATAAGGTTCTGTTGTTAAAAAAAAGTTTAGATAACTCTGTAGCTCTATGGTAGCTACAGAGCTACTCTATAGTAGCTCCCGGCGATAACTCTTGAAGGGGGAATAATGTGTAATAAACAGCACTTTCAAAACAGTTTTAGTTACAAAACTCTTTTTCAAGGGGCAATTTAGTAGAGTGATATTCTGTTTAACACAGTTTAGAAAAAGTTAGTCTTCTAATTCATTTGTTGGGATTTGTATCTATGTCTCTGTGGACAGTCACATCCAACTCTTTGTGACCCCATGGACTAGCCTGCCAGGCTCCTCTGTCAGTGGGATTTTCCCAGCAAGAATACTGGAGTGGGTTGCCATTTCCTTCTCTAGAGGATCTTTATCTACCTTTCACTTTATAAGCTTATTTGTTAATGTGATCTAGCAGTTAACTATTCATTGCAGTATGGTTTTCTGACACATTTCCAGTTGTCCGAGCTGTATTGAGGAATGTTATAGTTCTGAATTCATCTTCTATGTTCTGGAGTGTTATTCTTCTGGGCTTTGGGGCTTAAACTCATTTAAAGTGAGTTTTTTTGTGTGTGTTTTTGTTATATCCATGTATATTTTGGCTAGAATTCTTTATTGATCATGTTTAATGTACCCTTTCCAGTTTGAAGATAAGCATCTATGGAAAAGAAGAAAAGACAGTGGATCAAGTCCTTCTTCCTACTTCTGACATAACAGAAATCATTTCTAATTGACCTCTGCTCTCTTTGGCTTTAGTCTTCTGGCTATCTTCTTACAATTCTGGATCACCTTCTTTTGGTCATTTCTGTCTCCTCTATTTTTAATGTTCCTTTAAAGTGTTTCTAAAGAGCTTACCATTGTACACCTAGACATTAAATAAATAGAACTGCTCGTGTATGTTGCAAACTTGGAGGAGAGAGCGATAAGTGAAAGCTAGAATGTTCTCAGAAAGTCTCATAGAGCTTGACCTGGTAGGATAGATGGGTTCAGATAGGAGGAAAGATTATTCTACACAAGGGGGAGCCAGGGAAGGCAGGGTGGACATTATTCTGTAGAAACTGGAAAGAGCTATTGGAGCTGGTTCTCAGAGTAATCTGTCAGTGAAATTTCAGATGGAAGACTTATATTGCAAAGATATTGTTAAAAATCCAAACATCTAATTGTATCAAAGATATATATATATTTATATATAGATATAGATACATAACTTTTCATGACTTTTAAACTCCTTTATTGTTTGTGACTAGTTTAGCAGAATGCTTAGTTGACTCTTTAGAATCAACTACACTTCTGTCATTGCTACTGCGTTTGTTAATTCTGAGAAGAAGGTGGGAACCAGGCTGTGAGTAACCACAGCACTTTCTCTGACCCTTAAAAATACTGCCATTTCCTATAAACAAACTAAAATTTTTAAAATTGCCATTTCGTGAGTAAATGCTTGTTTAGTTTTAGGCATGAAATTGATCTTTTAAATCTATGTCGCGTCAAAATTAATAGAATTGATGTCAAATTACTGTACGTATTTATGTGGATCAATTAATCCACCCTATGCAATGTAAATCTGTTCTTCTTAGAGTGAAATATTTATCTGATAGTTTTTATATCTTATTTTCAG
Seq C2 exon
GTTGGCTCAAAAAGGGAAGTTGCCGAGTGTAAACAGAGATTTGCCACCTCTGAAGACCCCACAGTCAGTCAGACTTTCATGTTGGACAGGGTGTTCAACCCTGAGGGGAAGGCTCTGCCACCACTGAGAGGGTTCAAGTACACTAGCTGGTCCCCTGTGGGCTGTGACGCTAATGGCAGGTGCCTGCTGGCCGCACTGACCATGGACAATCGCCTGACCATCCAGGCTAACCTCAACAGACTGCAGTGGGTCCAGCTGGTGGACCTGACGGAGATTTATGGAGAGCGTCTCTATGAGACCAGCTACAGGTTCTCCAGAAACGAGGCCCCGGAGGGCAGTCTCAGGGATTTCGCCGAGTTTCAGAGGCGACACAGCATGCAGGCGCCGGTGCGCATGGAGTGGTCGGGCATCTGCACCACCCAGCAGGTCAAGCACAACAACGAGTGCCGCGACGTGGGCAGCGTGCTCCTGGCGGTCCTCTTCGAGAACGGGAACATCGCCGTGTGGCAGTTCCAGCTCCCCTTTGCAGGGAAGGAGTCCATCTCTTCATGCAACACCATCGAGTCAGGAATCAGCTCTCCTAGCGTTTTGTTCTGGTGGGAATATGAGCACAACAATCGGAAAATGAGCGGCCTTATAGTGGGGAGTGCTTTTGGGCCTGTGAAAATCCTGCCTGTCAACCTTAAAGCAGTCAAAGGCTATTTCACCTTGAGGCAGCCTGTCGTCTTGTGGAAAGAAATGGACCAGCTGCCAGTCCACAGCATCAAGTGCGTGCCGCTGTATCACCCTTACCAGAAGTGCAGCTGCAGCTTAGTGGTGGCCGCACGAGGGTCCTATGTGTTTTGGTGTCTTCTCCTGATCTCCAAAGCAGGTCTGAATGTTCACAACTCTCACGTCACAGGCCTGCACTCCCTGCCCATCGTCTCCATGACTGCCGACAAGCAGAATGGGACGGTGTATACTTGCTCCAGTGACGGCAAGGTGAGGCAGCTGATCCCCATTTTCACAGATGTGGCGTTGAAGTTTGAGCACCAGTTGATTAAACTCTCTGATGTGTTTGGCTCCGTGAGGACACACGGGATAGCCGTGAGCCCCTGCGGCGCATACCTGGCCGTCATCACCACTGAGGGCATGGTCAACGGCCTCCATCCCGTTAACAAAAACTACCAGGTTCAGTTCGTTACTCTCAAAACCTTTGAAGAGGCAGCTGCTCAGCTTCTGGAGTCTTCTGTCCAGAATCTCTTTAAGCAGGTAGATTTAATAGACCTAGTACGCTGGAAGATTTTAAAGGATAAGCATATCCCTCAATTTTTACATGAAGCTTTGGAAAAAAAGATCGAAAGCAGTGGGGCCACCTATTACTGGCGTTTCAAACTCTTCCTCTTGAGAATTTTATATCAGTCGATGCAGAAAACCCCTTCAGAAGCCTTGTGCAAACCCACCCACGAGGACTCAAAAATCTTGCTAGTTGACTCACCTGGGATGGGCAATGCTGAGGATGAACAGCAGGAGGAAGGCACCTCTTCCAAACAGATTAGTAAGCAAAGCAAAGACGGCGATCCAGAGGACCCCACAGAGGACTTACTCCCTCAATCTGCGGATACTGGAGGCCGAGAGCCAATGGAAGAGAAACTCCTTGAAATCCAGGGAAAAATTGAAGCAGTGGAAATGCACTTGACGAGGGAGCACATGAAGCGAGTCCTGGGCGAAGTGTATCTACACACCTGGATCACAGAAAACACTAGCATCCCCACCAGGGGACTCTGTAACTTCCTGATGTCTGATGAGGAGTATGATGACAGAACCGCACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004091:ENSBTAT00000005344:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.409 A=NA C2=0.103
Domain overlap (PFAM):
C1:
PF126572=TFIIIC_delta=PU(29.9=50.4)
A:
NA
C2:
PF126572=TFIIIC_delta=PD(69.1=22.2)
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