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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtacgtctctcataacctttctcttttccttcacccatgcttgtcgacacttgccaatcaagcctgttttggcagcatttggggctttctttgtggttgattttaatttctaagtttttgtttgtttgtttgtttgtttgtttgttttaatgtgttttacagGTCTTGGTGTACCATGATCTTCTCGGTATGATGCAACACCCCCATTTCGTGCAG

Basic information

species Physcomitrella patens
transcript PP1S130_272V6.4
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S130_272V6.4 (Physcomitrella patens), 3'ss of exon 5
lower sequence: AT2G46110.1 (Arabidopsis thaliana), 3'ss of exon 2
gtagtacgtctctcataacctttctcttttccttcacccatgcttgtcgacacttgccaatcaagcctgttttggcagcatttggggctttct--ttgtggttgattttaatttctaagtttttgtttgtttgtttgtttgtttgtttgttttaatgtgttttacagGTCTTGGTGTACCATGATCTTCTCGGTATGATGCAACACCCCCATTTCGTGCAG
                                                                |  |  ||||  |   ||| |  |||||   || ||  ||     ||     || |||   ||| |        ||  ||||||  ||  |  ||     |||||  | || |||||||||||||| |||||||||||||| || |||   |   ||
----------------------------------------------------------------gttttatttgaaaa-gtttcgttctttccggttttgtgtgtagccaagagacaaatttgcatttctcatacctgttaattgttttcttggaaatg-----cagGTGCTAGTTTACCATGATCTTCTTGGTATGATGCAACATCCACATCATGCCAAG
















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|208363937|gb|DC950341.1|DC950341
EST:     TCTGTAGTGGCCAG                         GTCTTGGTGTACCATGATCTTTCTCGGTATGATGCAACACCCCCATTTCGT
genomic: TCTGTAGTGGCCAGgtagtacgtc ... tgttttacagGTCTTGGTGTACCATGATC-TTCTCGGTATGATGCAACACCCCCATTTCGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctaagtttttgtttgtttgtttgtttgtttgtttgttttaatgtgttttacagGTCTTGGTGTACCATGATCTTCTCGGTATGATGCAACACCCCCATTTCGTGCAG
                                     ttttaat  putative branch site (score: 3)
                             tttgtttgttttaat  TA-rich tract