Skip to another splice site:
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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaatgttacagacgaaggctgttgagtgatgtcaattacccgagaaatatagatcttacagatccaagattctgatttttttttgcaaataatgttgcagCTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGGGTACTCACTAAATCACCGCAGAACATTCTAGAAATCCGGATTCCATTTA

Basic information

species Physcomitrella patens
transcript PP1S207_101V6.1
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|162269029|gb|FC445521.1|FC445521
EST:     GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAG                         CTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
genomic: GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAGgtaaatgtct ... aatgttgcagCTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
EST: gi|162164254|gb|FC342069.1|FC342069
EST:     GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAG                         CTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
genomic: GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAGgtaaatgtct ... aatgttgcagCTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
EST: gi|162269028|gb|FC445520.1|FC445520
EST:     GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAG                         CTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
genomic: GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAGgtaaatgtct ... aatgttgcagCTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
EST: gi|162164253|gb|FC342068.1|FC342068
EST:     GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAG                         CTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
genomic: GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAGgtaaatgtct ... aatgttgcagCTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
EST: gi|37827260|gb|BJ585272.1|BJ585272
EST:     GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAG                         CTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
genomic: GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAGgtaaatgtct ... aatgttgcagCTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
EST: gi|162157800|gb|FC334071.1|FC334071
EST:     GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAG                         CTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
genomic: GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAGgtaaatgtct ... aatgttgcagCTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
EST: gi|162167944|gb|FC344882.1|FC344882
EST:     GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAG                         CTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
genomic: GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAGgtaaatgtct ... aatgttgcagCTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
EST: gi|37835677|gb|BJ593689.1|BJ593689
EST:     GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAG                         CTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
genomic: GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAGgtaaatgtct ... aatgttgcagCTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
EST: gi|67695975|gb|BJ956208.1|BJ956208
EST:     GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAG                         CTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
genomic: GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAGgtaaatgtct ... aatgttgcagCTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
EST: gi|162226413|gb|FC402406.1|FC402406
EST:     GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAG                         CTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
genomic: GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAGgtaaatgtct ... aatgttgcagCTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
EST: gi|208396881|gb|DC924381.1|DC924381
EST:     GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAG                         CTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
genomic: GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAGgtaaatgtct ... aatgttgcagCTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
EST: gi|18335447|gb|BJ167467.1|BJ167467
EST:     GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAG                         CTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
genomic: GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAGgtaaatgtct ... aatgttgcagCTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
EST: gi|162201291|gb|FC376810.1|FC376810
EST:     GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAG                         CTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
genomic: GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAGgtaaatgtct ... aatgttgcagCTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
EST: gi|162157801|gb|FC334072.1|FC334072
EST:     GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAG                         CTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
genomic: GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAGgtaaatgtct ... aatgttgcagCTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
EST: gi|162273484|gb|FC449629.1|FC449629
EST:     GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAG                         CTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
genomic: GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAGgtaaatgtct ... aatgttgcagCTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
EST: gi|162245424|gb|FC421326.1|FC421326
EST:     GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAG                         CTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
genomic: GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAGgtaaatgtct ... aatgttgcagCTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
EST: gi|67700953|gb|BJ961186.1|BJ961186
EST:     GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAG                         CTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
genomic: GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAGgtaaatgtct ... aatgttgcagCTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
EST: gi|6102207|gb|AW126677.1|AW126677
EST:     AGCTAGATGCCGAG                         CTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
genomic: AGCTAGATGCCGAGgtaaatgtct ... aatgttgcagCTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
EST: gi|208386501|gb|DC956849.1|DC956849
EST:     GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAG                         CTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG
genomic: GGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAGgtaaatgtct ... aatgttgcagCTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGG

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: 20 (upstream exon), 35 (downstream exon)
Score: 19

ATTGAGGGAGGTTGCTAAGCGCATTGTGGAAGACATGAATAGGAATCATTGGGAAGACATTCGTCGATTTTGCAACGTATACGCAAAGCTAGATGCCGAGgtaaatgtct ... aatgttgcagCTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGGGTACTCACTAAATCACCGCAGAACATTCTAGAAATCCGGATTCCATTTA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatatagatcttacagatccaagattctgatttttttttgcaaataatgttgcagCTTGAGGAGGCAAGCATGACATGGGTGGACAGGCTTGGATTCGATTTACGGGTACTCACTAAATCACCGCAGAACATTCTAGAAATCCGGATTCCATTTA
                        ttctgat  putative branch site (score: 19)
                             atttttttttgcaaat  TA-rich tract