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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatccaccatgcacgtggcccctgtgatgtggaatcttgcttggaaacgaacattaaattatttatagttggtcttgcttgcaagtagaaactaagttctacccttctttgtttctgtacactcatggtataggttttgatttgcagCGCTTGTTGCAATACAACCCAGCGAATCGAATTTCAGCTAAGGAAGCTCTAGTCCACCCCTATTTTGACAGCCTTGACAAATCACAGTTTTGAGTGTTTG

Basic information

species Physcomitrella patens
transcript PP1S61_200V6.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S61_200V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: AT2G38620.2 (Arabidopsis thaliana), 3'ss of exon 3
gtaagtatccaccatgcacgtggcccctgtgatgtggaatcttgcttggaaacgaacattaaattattt---atagttggtcttgcttgcaagtagaaactaagttctacccttctttgtttctgtacactcatggtataggttttgat--ttgcagCGCTTGTTGCAATACAACCCAGCGAATCGAATTTCAGCTAAGGAAGCTCTAGTCCACCCCTATTTTGACAGCCTTGACAAATCACAGTTTTGAGTGTTTG-
             |||| | |     ||   || || |   ||| | |  ||    | | | ||| | |   ||| ||| |||   | | |  |     ||         | ||| | |||  ||   | |  |  |  |  |||  |   |||||||   ||||| | ||||| |||||  |  |||||||||| || | |||||| |  || ||||| |||||||||||||||||||| ||||| |||   | || 
----------gtaatgctctt---ttctaaaatatg-accattgttggagaagtggcctaagattctcttgcatacttgatctctttagtagattctttctgttggggttcgttcctagttgatgataatttgttttgaacctttgaacaattgcagCAAATGTTGAAGTACAATCCAGCAGAAAGAATTTCAGCAAAAGCAGCTCTCGATCATCCCTACTTTGACAGCCTTGACAAATCTCAGTTCTGACC-TCTGC
















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|18338711|gb|BJ170735.1|BJ170735
EST:     TTGCACAAGCTGTGCCAAGAGTCGAACGAAGTGGTGTCGATCTCCTCGAT                         CGCTTGTTGCAATACAACCCAGCGAATCGAATTTCAGCTAAGGAAGCTCTA
genomic: TTGCACAAGCTGTGCCAAGAGTCGAACGAAGTGGTGTCGATCTCCTCGATgtaagtatcc ... tgatttgcagCGCTTGTTGCAATACAACCCAGCGAATCGAATTTCAGCTAAGGAAGCTCTA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taagttctacccttctttgtttctgtacactcatggtataggttttgatttgcagCGCTTGTTGCAATACAACCCAGCGAATCGAATTTCAGCTAAGGAAGCTCTAGTCCACCCCTATTTTGACAGCCTTGACAAATCACAGTTTTGAGTGTTTG
                                          ttttgat  putative branch site (score: 4)
                                          ttttgattt  TA-rich tract