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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cagttagtaatgctactcatttaagtttataaccatgtaccatcttcttgaatttagtcaaaaaaattctgttcatttttttccttcactaattttgcagGGTCCTCAATATGTATGCACAACTTTTGCTACCTTCGTCTGCACACAATGTAGTGGTATCCA

Basic information

species Physcomitrella patens
transcript PP1S120_129V6.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S120_129V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: AT4G32630.2 (Arabidopsis thaliana), 3'ss of exon 2
cagttagtaatgctactcatttaagtttataaccatgtaccatcttcttgaatttagtcaaaaaaatt--ctgttcatttttttccttcact---aattttgcagGGTCCTCAATATGTATGCACAACTTTTGCTACCTTCGTCTGCACACAATGTAGTGGTATCCA
       |  | | ||   ||||  |    |  | |  |     || ||| |   | | |   |  |     | ||||| || ||   ||     |  |||||||||||| |||||||||||| |||||||    || || ||||||    | || || || |||||
-----gttggtacaacatttttagctgatcatacgtacattcatttgttggagccaatgatccatctgaatagctcattgttgtctaacatgtgaatctttgcagGGTCCACAATATGTATGCTCAACTTTCTGGACTTTTGTCTGCGTTAACTGCAGCGGAATCCA
















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|18354315|gb|BJ186371.1|BJ186371
EST:     GTTTGCTCAAGATCCCGGAGAACAAAAGGTGTATCAATTGCAACAGTTTG                         GGTCCTCAATATGTATGCACAACTTTTGCTACCTTCGTCTGCACACAATGT
genomic: GTTTGCTCAAGATCCCGGAGAACAAAAGGTGTATCAATTGCAACAGTTTGgtcagttgct ... aattttgcagGGTCCTCAATATGTATGCACAACTTTTGCTACCTTCGTCTGCACACAATGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttgaatttagtcaaaaaaattctgttcatttttttccttcactaattttgcagGGTCCTCAATATGTATGCACAACTTTTGCTACCTTCGTCTGCACACAATGTAGTGGTATCCA
                                         cactaat  putative branch site (score: 2)
                              tttttttccttcacta  CT-rich tract
              aaaaaaattctgttca  TA-rich tract