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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cgtttctgttgctgcttgtttttatgttattattcactgtatctgctatgttttgtccaccagctttgactcatgtctttggtttgcattggtttggcagACTGTGCAATATCCAGTGGAGCATCCTGAGAAGTTTGAGAAATTTGGAATGTCACCATCAAAGGGAGTGTTGTTTTATGGTCCACCTGGATGTGGAAAGA

Basic information

species Physcomitrella patens
transcript PP1S296_11V6.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S296_11V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: EFJ08901 (Selaginella moellendorffii), 3'ss of exon 6
cgtttctgttgctgcttgtttttatgttattattcactgtatctgctatgttttgtccaccagctttgactcatgtctttggtttgcattggtttggcagACTGTGCAATATCCAGTGGAGCATCCTGAGAAGTTTGAGAAATTTGGAATGTCACCATCAAAGGGAGTGTTGTTTTATGGTCCACCTGGATGTGGAAAGA
                                              | | | || |   |  | |  | || || ||||  |   | ||| ||   ||||||||||||||||||||| |||||||| |||||||||||||| ||||| ||||| || || |||||||| ||||| ||||| || ||||||||||||||||
-----------------------------------------gtgagtgtttgttatgagctggatgcggctgatttcttatgccggaatttgt---gcagACTGTGCAATATCCAGTTGAGCATCCGGAGAAGTTTGAGAAGTTTGGGATGTCGCCGTCCAAGGGAGTCTTGTTCTATGGGCCTCCTGGATGTGGAAAGA

upper sequence: PP1S296_11V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: EFJ29753 (Selaginella moellendorffii), 3'ss of exon 6
cgtttctgttgctgcttgtttttatgttattattcactgtatctgctatgttttgtccaccagctttgactcatgtctttggtttgcattggtttggcagACTGTGCAATATCCAGTGGAGCATCCTGAGAAGTTTGAGAAATTTGGAATGTCACCATCAAAGGGAGTGTTGTTTTATGGTCCACCTGGATGTGGAAAGA
                                            | | | | || |   |  | |  | || ||  |||  |   | ||| ||   ||||||||||||||||||||| |||||||| |||||||||||||| ||||| ||||| || || |||||||| ||||| ||||| || ||||||||||||||||
-----------------------------------------gtgggtgtttgttatgagctggatgcggctgattccttatgccggtatttgt---gcagACTGTGCAATATCCAGTTGAGCATCCGGAGAAGTTTGAGAAGTTTGGGATGTCGCCGTCCAAGGGAGTCTTGTTCTATGGGCCTCCTGGATGTGGAAAGA
















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|22132961|gb|BQ827459.1|BQ827459
EST:     CCTGGGAAGACATTGGAGGTCTGGAGAATGTTAAGCGGGAGCTACAAGAG                         ACTGTGCAATATCCAGTGGAGCATCCTGAGAAGTTTGAGAAATTTGGAATG
genomic: CCTGGGAAGACATTGGAGGTCTGGAGAATGTTAAGCGGGAGCTACAAGAGgtacttaaac ... ggtttggcagACTGTGCAATATCCAGTGGAGCATCCTGAGAAGTTTGAGAAATTTGGAATG
EST: gi|162179673|gb|FC355731.1|FC355731
EST:     CCTGGGAAGACATTGGAGGTCTGGAGAATGTTAAGCGGGAGCTACAAGAG                         ACTGTGCAATATCCAGTGGAGCATCCTGAGAAGTTTGAGAAATTTGGAATG
genomic: CCTGGGAAGACATTGGAGGTCTGGAGAATGTTAAGCGGGAGCTACAAGAGgtacttaaac ... ggtttggcagACTGTGCAATATCCAGTGGAGCATCCTGAGAAGTTTGAGAAATTTGGAATG
EST: gi|162215375|gb|FC391871.1|FC391871
EST:     CCTGGGAAGACATTGGAGGTCTGGAGAATGTTAAGCGGGAGCTACAAGAG                         ACTGTGCAATATCCAGTGGAGCATCCTGAGAAGTTTGAGAAATTTGGAATG
genomic: CCTGGGAAGACATTGGAGGTCTGGAGAATGTTAAGCGGGAGCTACAAGAGgtacttaaac ... ggtttggcagACTGTGCAATATCCAGTGGAGCATCCTGAGAAGTTTGAGAAATTTGGAATG
EST: gi|162170416|gb|FC347614.1|FC347614
EST:     CCTGGGAAGACATTGGAGGTCTGGAGAATGTTAAGCGGGAGCTACAAGAG                         ACTGTGCAATATCCAGTGGAGCATCCTGAGAAGTTTGAGAAATTTGGGATG
genomic: CCTGGGAAGACATTGGAGGTCTGGAGAATGTTAAGCGGGAGCTACAAGAGgtacttaaac ... ggtttggcagACTGTGCAATATCCAGTGGAGCATCCTGAGAAGTTTGAGAAATTTGGAATG
EST: gi|162150014|gb|FC326545.1|FC326545
EST:     CTGGGAAGACATTGGAGGTCTGGAGAAATGT-AAGCGGGAGCTACAAGAG                         ACTGTGCAATATCCAGTGGAGCATCCTGAGAAGTTTGAGAAATTTGGAATG
genomic: CTGGGAAGACATTGGAGGTCTGGAGAA-TGTTAAGCGGGAGCTACAAGAGgtacttaaac ... ggtttggcagACTGTGCAATATCCAGTGGAGCATCCTGAGAAGTTTGAGAAATTTGGAATG
EST: gi|162163653|gb|FC339758.1|FC339758
EST:     CCTGGGAAGACATTGGAGGTCTGGAGAATGTTAAGCGGGAGCTACAAGAG                         ACTGTGCAATATCCAGTGGAGCATCCTGAGAAGTTTGAGAAATTTGGAATG
genomic: CCTGGGAAGACATTGGAGGTCTGGAGAATGTTAAGCGGGAGCTACAAGAGgtacttaaac ... ggtttggcagACTGTGCAATATCCAGTGGAGCATCCTGAGAAGTTTGAGAAATTTGGAATG
EST: gi|162162587|gb|FC338681.1|FC338681
EST:     CCTGGGAAGACATTGGAGGTCTGGAGAATGTTAAGCGGGAGCTACAAGAG                         ACTGTGCAATATCCAGTGGAGCATCCTGAGAAGTTTGAGAAATTTGGAATG
genomic: CCTGGGAAGACATTGGAGGTCTGGAGAATGTTAAGCGGGAGCTACAAGAGgtacttaaac ... ggtttggcagACTGTGCAATATCCAGTGGAGCATCCTGAGAAGTTTGAGAAATTTGGAATG
EST: gi|162157112|gb|FC333682.1|FC333682
EST:     CCTGGGAAGACATTGGAGGTCTGGAGAATGTTAAGCGGGAGCTACAAGAG                         ACTGTGCAATATCCAGTGGA
genomic: CCTGGGAAGACATTGGAGGTCTGGAGAATGTTAAGCGGGAGCTACAAGAGgtacttaaac ... ggtttggcagACTGTGCAATATCCAGTGGA
EST: gi|162191519|gb|FC368445.1|FC368445
EST:     CCTGGGAAGACATTGGAGGTCTGGAGAATGTTAAGCGGGAGCTACAAGAG                         ACTGTGCAATATCCAGTGGAGCATCCTGAGAAGTTTGAGAAATTTGGAATG
genomic: CCTGGGAAGACATTGGAGGTCTGGAGAATGTTAAGCGGGAGCTACAAGAGgtacttaaac ... ggtttggcagACTGTGCAATATCCAGTGGAGCATCCTGAGAAGTTTGAGAAATTTGGAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatgttttgtccaccagctttgactcatgtctttggtttgcattggtttggcagACTGTGCAATATCCAGTGGAGCATCCTGAGAAGTTTGAGAAATTTGGAATGTCACCATCAAAGGGAGTGTTGTTTTATGGTCCACCTGGATGTGGAAAGA
                  ctttgac  putative branch site (score: 4)