Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   		24  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgcctctaccctttctgcattctgctcttaattttttcattcctgcagaataactttctttttgagactactattccttacatattaatgtcgttgcagGTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTTAACCCTTACCATTCAGATCGCTTTCTACTGTCAAA

Basic information

species Physcomitrella patens
transcript PP1S414_22V6.1
intron # 21
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|162196692|gb|FC373825.1|FC373825
EST:     TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGT                         GTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
genomic: TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGTgtacgcctct ... gtcgttgcagGTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
EST: gi|162154533|gb|FC330743.1|FC330743
EST:     TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGT                         GTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
genomic: TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGTgtacgcctct ... gtcgttgcagGTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
EST: gi|37846088|gb|BJ604096.1|BJ604096
EST:     TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGT                         GTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
genomic: TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGTgtacgcctct ... gtcgttgcagGTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
EST: gi|162275984|gb|FC452052.1|FC452052
EST:     TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGT                         GTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
genomic: TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGTgtacgcctct ... gtcgttgcagGTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
EST: gi|162255375|gb|FC432101.1|FC432101
EST:     TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGT                         GTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
genomic: TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGTgtacgcctct ... gtcgttgcagGTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
EST: gi|162192599|gb|FC370646.1|FC370646
EST:     TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGT                         GTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
genomic: TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGTgtacgcctct ... gtcgttgcagGTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
EST: gi|162196103|gb|FC372742.1|FC372742
EST:     TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGT                         GTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
genomic: TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGTgtacgcctct ... gtcgttgcagGTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
EST: gi|162172803|gb|FC348392.1|FC348392
EST:     TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGT                         GTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
genomic: TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGTgtacgcctct ... gtcgttgcagGTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
EST: gi|162192598|gb|FC370645.1|FC370645
EST:     TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGT                         GTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
genomic: TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGTgtacgcctct ... gtcgttgcagGTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
EST: gi|162154532|gb|FC330742.1|FC330742
EST:     TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGT                         GTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
genomic: TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGTgtacgcctct ... gtcgttgcagGTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
EST: gi|19790154|gb|BQ041724.1|BQ041724
EST:     CAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGT                         GTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
genomic: CAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGTgtacgcctct ... gtcgttgcagGTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
EST: gi|37827917|gb|BJ585929.1|BJ585929
EST:     TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGT                         GTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
genomic: TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGTgtacgcctct ... gtcgttgcagGTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
EST: gi|162175300|gb|FC351498.1|FC351498
EST:     TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGT                         GTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
genomic: TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGTgtacgcctct ... gtcgttgcagGTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
EST: gi|37832308|gb|BJ590320.1|BJ590320
EST:     TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGT                         GTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
genomic: TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGTgtacgcctct ... gtcgttgcagGTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
EST: gi|162198495|gb|FC375330.1|FC375330
EST:     TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGT                         GTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
genomic: TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGTgtacgcctct ... gtcgttgcagGTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
EST: gi|37848660|gb|BJ606668.1|BJ606668
EST:     TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGT                         GTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
genomic: TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGTgtacgcctct ... gtcgttgcagGTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
EST: gi|37824938|gb|BJ583004.1|BJ583004
EST:     TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGT                         GTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT
genomic: TTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGTgtacgcctct ... gtcgttgcagGTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTT

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 35 (upstream exon), 11 (downstream exon)
Score: 6

TTTGGGACTTATTGGAGCTGGGACTAATAATGCCCGAATTGCTGGCATGCTTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGTgtacgcctct ... gtcgttgcagGTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTTAACCCTTACCATTCAGATCGCTTTCTACTGTCAAA




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcagaataactttctttttgagactactattccttacatattaatgtcgttgcagGTCAGGATTGCTCAAGGACTTGTCCACATGGGGAAGGGACTGTTGACGCTTAACCCTTACCATTCAGATCGCTTTCTACTGTCAAA
                                      tattaat  putative branch site (score: 6)
     ataactttcttttt  TA-rich tract