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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgtgccactcactctttttaaggcatttaacatatttttaatgtgatgtaatgtacataagaagatgttttaatacttctgtcgtcgtatttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAGCTGGGGCATGTCATTGTGATGATTCTTCTCGTGAAACTATTTGAGAAAA

Basic information

species Physcomitrella patens
transcript PP1S6_194V6.1
intron # 4
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|162167439|gb|FC343142.1|FC343142
EST:     GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACG                         CGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
genomic: GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
EST: gi|162198165|gb|FC373089.1|FC373089
EST:     GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACG                         CGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
genomic: GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
EST: gi|162178816|gb|FC354748.1|FC354748
EST:     GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACG                         CGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
genomic: GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
EST: gi|162264350|gb|FC440516.1|FC440516
EST:     GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACG                         CGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
genomic: GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
EST: gi|162233471|gb|FC410242.1|FC410242
EST:     GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACG                         CGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
genomic: GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
EST: gi|162192965|gb|FC371948.1|FC371948
EST:     GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACG                         CGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
genomic: GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
EST: gi|18332942|gb|BJ164955.1|BJ164955
EST:     GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACG                         CGTCGNGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAA
genomic: GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCG-GCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAA
EST: gi|162265400|gb|FC440726.1|FC440726
EST:     GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACG                         CGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
genomic: GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
EST: gi|162152959|gb|FC329261.1|FC329261
EST:     GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACG                         CGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
genomic: GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
EST: gi|67698792|gb|BJ959025.1|BJ959025
EST:     GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACG                         CGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
genomic: GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
EST: gi|162211231|gb|FC386943.1|FC386943
EST:     GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACG                         CGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
genomic: GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
EST: gi|37837789|gb|BJ595797.1|BJ595797
EST:     GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACG                         CGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
genomic: GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
EST: gi|162219204|gb|FC396643.1|FC396643
EST:     GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACG                         CGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
genomic: GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
EST: gi|162254307|gb|FC430442.1|FC430442
EST:     GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACG                         CGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
genomic: GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
EST: gi|15327535|gb|BI488289.1|BI488289
EST:     GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACG                         CGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
genomic: GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
EST: gi|162187283|gb|FC363233.1|FC363233
EST:     GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACG                         CGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
genomic: GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
EST: gi|162162785|gb|FC337839.1|FC337839
EST:     GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACG                         CGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
genomic: GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
EST: gi|162168367|gb|FC344681.1|FC344681
EST:     GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACG                         CGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
genomic: GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
EST: gi|162189668|gb|FC366306.1|FC366306
EST:     GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACG                         CGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
genomic: GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
EST: gi|208397953|gb|DC916708.1|DC916708
EST:     GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACG                         CGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
genomic: GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
EST: gi|162162784|gb|FC337838.1|FC337838
EST:     GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACG                         CGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
genomic: GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
EST: gi|162192964|gb|FC371947.1|FC371947
EST:     GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACG                         CGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
genomic: GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
EST: gi|162179437|gb|FC355437.1|FC355437
EST:     GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACG                         CGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
genomic: GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
EST: gi|18340704|gb|BJ172734.1|BJ172734
EST:     GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACG                         CGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
genomic: GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
EST: gi|162179436|gb|FC355436.1|FC355436
EST:     GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACG                         CGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG
genomic: GTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAG

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: 29 (upstream exon), 23 (downstream exon)
Score: 3

AATGGGCTTATATGGACTGTTCATTAGCAACGAATCAAATGACGGAAAAAGTGATCGTGCATTGAAGAATACTACCCTCTTCGGTATGTTTGCACTCACGgtaagcgaga ... tttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAGCTGGGGCATGTCATTGTGATGATTCTTCTCGTGAAACTATTTGAGAAAA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatgtaatgtacataagaagatgttttaatacttctgtcgtcgtatttcaaacagCGTCGGCCACTGTGGATGCGGATTACAACCCTTGACACATTAAAAACAAAGCTGGGGCATGTCATTGTGATGATTCTTCTCGTGAAACTATTTGAGAAAA
                       ttttaat  putative branch site (score: 3)
                 aagatgttttaata  TA-rich tract