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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATTGGGGACTTCTATACTGGTGTTTACACGAACGGGCTTTATGGCTCTGTTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGAgtacgtttcagttcctttgcaatgatttacttcaaactcattggtaattacgttccaggtttcgatgtcgtgatgctgcatagtcatgttaattgttata...

Basic information

species Physcomitrella patens
transcript PP1S318_21V6.1
intron # 9
splice site 5'
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|162223833|gb|FC400087.1|FC400087
EST:     TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGA                         TAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
genomic: TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGAgtacgtttca ... ttacttgcagTAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
EST: gi|18339668|gb|BJ171695.1|BJ171695
EST:     TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGA                         TAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
genomic: TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGAgtacgtttca ... ttacttgcagTAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
EST: gi|162223832|gb|FC400086.1|FC400086
EST:     TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGA                         TAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
genomic: TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGAgtacgtttca ... ttacttgcagTAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
EST: gi|162173131|gb|FC348704.1|FC348704
EST:     TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGA                         TAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
genomic: TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGAgtacgtttca ... ttacttgcagTAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
EST: gi|208351340|gb|DC922091.1|DC922091
EST:     TTATTGAGCCATTACCGTCCAGNTGGTACTATNTTCGCTTTCACAAACGA                         TAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
genomic: TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGAgtacgtttca ... ttacttgcagTAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
EST: gi|37829503|gb|BJ587515.1|BJ587515
EST:     TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGA                         TAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
genomic: TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGAgtacgtttca ... ttacttgcagTAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
EST: gi|162256309|gb|FC432319.1|FC432319
EST:     TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGA                         TAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
genomic: TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGAgtacgtttca ... ttacttgcagTAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
EST: gi|37836919|gb|BJ594927.1|BJ594927
EST:     TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGA                         TAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
genomic: TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGAgtacgtttca ... ttacttgcagTAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
EST: gi|18337336|gb|BJ169360.1|BJ169360
EST:     TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGA                         TAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
genomic: TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGAgtacgtttca ... ttacttgcagTAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
EST: gi|208348104|gb|DC916914.1|DC916914
EST:     TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGA                         TAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
genomic: TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGAgtacgtttca ... ttacttgcagTAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
EST: gi|162155346|gb|FC331245.1|FC331245
EST:     TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGA                         TAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
genomic: TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGAgtacgtttca ... ttacttgcagTAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
EST: gi|162202021|gb|FC377227.1|FC377227
EST:     TTATTGAGCCATTACCGTCCAGTTGGTACTATTTTCGCTTTCACAAACGA                         TAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
genomic: TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGAgtacgtttca ... ttacttgcagTAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
EST: gi|18337218|gb|BJ169242.1|BJ169242
EST:     TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGA                         TAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
genomic: TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGAgtacgtttca ... ttacttgcagTAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
EST: gi|37822742|gb|BJ580808.1|BJ580808
EST:     TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGA                         TAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
genomic: TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGAgtacgtttca ... ttacttgcagTAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
EST: gi|162158980|gb|FC334827.1|FC334827
EST:     TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGA                         TAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
genomic: TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGAgtacgtttca ... ttacttgcagTAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
EST: gi|208363112|gb|DC954326.1|DC954326
EST:     TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGA                         TAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA
genomic: TTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGAgtacgtttca ... ttacttgcagTAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACA

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: 34 (upstream exon), 31 (downstream exon)
Score: 10

CATTGGGGACTTCTATACTGGTGTTTACACGAACGGGCTTTATGGCTCTGTTATTGAGCCATTACCGTCCAGTTGGTACTATCTTCGCTTTCACAAACGAgtacgtttca ... ttacttgcagTAAGAGAGTGCAATCGAGATTGGCTCTTTACCATGGTGTAAGAGCTATACACATTAAATTCACAAACGACGCGGAGGAGACGTTTAATTATGCGCTCAGC




<











<


<