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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgggcatcgatgatgtcggctgccggcgtttttcagatcgtcttctgggcggagcatatatttcgcatttgcagcgctctgaaccggtgttttttccctgtctgggcttgaatagttgacgtagcctttccttgaaattaatagttttatttttggtatcagGGACTACACGAATCCATATCTTCCGGTGGCTCCATCAGCAATTGATGGTAGTGGTCAG

Basic information

species Physcomitrella patens
transcript PP1S326_1V6.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S326_1V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: LOC_Os08g33830.2 (Oryza sativa), 3'ss of exon 5
gtactgggcatcgatgatgtcggctgccggcgtttttcagatcgtcttctgggcggagcatatatttcgcatttgcagcgctctgaaccggtgttttttccctgtctgggcttgaatagttgacgtagcctttccttgaaatta-atagttttatttttggtatcagGGACTACACGAATCCATATCTTCCGGTGGCTCCATCAGCAATTGATGGTAGTGGTCAG
                                                            || |    | |  ||  |   | | ||    || ||||  |||   |  || |  ||  |||| | || |  | ||  || | | ||   |   | ||||||  |||||| |||||||||||||||||||| |||  |||| ||||||| || || |  |  |||
-----------------------------------------------------------gtaaagagggaagctggcgatgtttaaatt--tgattttaacctccattagcat--atgcttgatg-agacaatactcaaattcacatcactaactgtttggttacagGGATTACACGAATCCATATCTTCCTGTGAATCCAACAGCAATCGAGGGAATCGCACAG
















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|162272186|gb|FC448695.1|FC448695
EST:     TTCTCTGCGCACAATGATCTCAACGTGAAGTTCCAAAGTCATCGGAGCAG                         GGACTACACGAATCCATATCTTCCGGTGGCTCCATCAGCAATTGATGGTAG
genomic: TTCTCTGCGCACAATGATCTCAACGTGAAGTTCCAAAGTCATCGGAGCAGgtactgggca ... ttggtatcagGGACTACACGAATCCATATCTTCCGGTGGCTCCATCAGCAATTGATGGTAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgaatagttgacgtagcctttccttgaaattaatagttttatttttggtatcagGGACTACACGAATCCATATCTTCCGGTGGCTCCATCAGCAATTGATGGTAGTGGTCAG
                            aattaat  putative branch site (score: 3)
                                     ttttattttt  putative PPT
                   tttccttgaaattaat  TA-rich tract