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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggaatctcctgctatttctctttacacctatttggattagtctagcagacgctttctcttatcagcttggaagggaaagttctaatcacttgtaatgaaatgtggatgcagGTTCGTATGGCAGTCTTTAGTCAGCATCATGTTGATGGCTTGGATCTCTCATCAACGCCTCTTCTCTACATGGCACACTGTTTCCCT

Basic information

species Physcomitrella patens
transcript PP1S47_97V6.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S47_97V6.1 (Physcomitrella patens), 3'ss of exon 13
lower sequence: GLYMA13G10530.1 (Glycine max), 3'ss of exon 12
gtgggaatctcctgctatttctctttacacctatttggattagtctagcagacgctttctcttatcagcttggaagggaaagttctaatcacttgtaatgaaatgtggatgcagGTTCGTATGGCAGTCTTTAGTCAGCATCATGTTGATGGCTTGGATCTCTCATCAACGCCTCTTCTCTACATGGCACACTGTTTCCCT
 ||| ||    | |     |  |   |   || |    | || | ||     |    |    ||| |  |||||     || | |  |||  |  ||            | ||||||||||| ||||| || |||||||| |||||||||||  | ||  | || ||||  |||||||| || |||   | ||| |  |||
ctggaaaggatcagag---tggccgcaagtctgtcctcaataatgtatttt-catacttcaatattattttggatcattaattacacatctttactatc----------tacagGTTCGTATAGCAGTGTTCAGTCAGCACCATGTTGATGGACTCGACTTATCCTCAAATCCTCTTCTGTATATGATGCGCTGCTATCCT

upper sequence: PP1S47_97V6.1 (Physcomitrella patens), 3'ss of exon 13
lower sequence: GLYMA20G16170.1 (Glycine max), 3'ss of exon 12
gtgggaatctcctgctatttctctttacacctatttggattagtctagcagacgctttctcttatcagcttggaagggaaagttctaatcacttgtaatgaaatgtggatgcagGTTCGTATGGCAGTCTTTAGTCAGCATCATGTTGATGGCTTGGATCTCTCATCAACGCCTCTTCTCTACATGGCACACTGTTTCCCT
 | | |||   | |        | |  |     ||   | |    |  || ||    | |  ||| |  |||||     || | |  |||  |  ||            | ||||||||||| ||||| || |||||||| |||||||||||  ||||  | || ||||  |||||||| || |||   | ||| |  |||
ctagaaatgatcggaatggcagcatgtcggtccttaataatgtcttttcatac----tttaatattattttggatcattaattacacatctttactatc----------tacagGTTCGTATAGCAGTGTTCAGTCAGCACCATGTTGATGGACTGGACTTATCCTCAAACCCTCTTCTGTATATGATGCGCTGCTATCCT

upper sequence: PP1S47_97V6.1 (Physcomitrella patens), 3'ss of exon 13
lower sequence: EFJ22634 (Selaginella moellendorffii), 3'ss of exon 13
gtgggaatctcctgctatttctctttacacctatttggattagtctagcagacgctttctcttatcagcttggaagggaaagttctaatcacttgtaatgaaatgtggatgcagGTTCGTATGGCAGTCTTTAGTCAGCATCATGTTGATGGCTTGGATCTCTCATCAACGCCTCTTCTCTACATGGCACACTGTTTCCCT
                                                                |   | ||||||       | ||| || |  ||        | | | ||||| || ||||| || ||||||||||| ||||| || ||| | || || |||||||||||||| ||||||||| |||  |||||||||
---------------------------------------------------------------gtactcctggaagatttg--tataaccattcttaggtggccattg-tccagGTGCGCATGGCTGTTTTTAGTCAGCACCATGTAGACGGCCTTGACCTTTCATCAACGCCTCTCCTCTACATGTCACGTTGTTTCCCT

upper sequence: PP1S47_97V6.1 (Physcomitrella patens), 3'ss of exon 13
lower sequence: EFJ11792 (Selaginella moellendorffii), 3'ss of exon 13
gtgggaatctcctgctatttctctttacacctatttggattagtctagcagacgctttctcttatcagcttggaagggaaagttctaatcacttgtaatgaaatgtggatgcagGTTCGTATGGCAGTCTTTAGTCAGCATCATGTTGATGGCTTGGATCTCTCATCAACGCCTCTTCTCTACATGGCACACTGTTTCCCT
                                                                |   | ||||||       | ||| || |  ||        | | | ||||| || ||||| || ||||||||||| ||||| || ||| | || || || ||||||||||| ||||||||| |||  |||||||||
---------------------------------------------------------------gtactcctggaagatttg--tataaccattcttaggcggccattg-tccagGTGCGCATGGCTGTTTTTAGTCAGCACCATGTAGACGGCCTTGACCTTTCGTCAACGCCTCTCCTCTACATGTCACGTTGTTTCCCT

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|19789030|gb|BQ041056.1|BQ041056
EST:     TTGGAGCCTATATCCGGAACCGTGTTTAGATCGGCGAAG                         GTTCGTATGGCAGTCTTTAGTCAGCATCATGTTGATGGCTTGGATCTCTCA
genomic: TTGGAGCCTATATCCGGAACCGTGTTTAGATCGGCGAAGgtgggaatct ... gtggatgcagGTTCGTATGGCAGTCTTTAGTCAGCATCATGTTGATGGCTTGGATCTCTCA
EST: gi|162199129|gb|FC375821.1|FC375821
EST:     TTTCAGGAGAGTTGGAGCCTATATCCGGAACCGTGTTTAGATCGGCGAAG                         GTTCGTATGGCAGTCTTTAGTCAGCATCATGTTGATGGCTTGGATCTCTCA
genomic: TTTCAGGAGAGTTGGAGCCTATATCCGGAACCGTGTTTAGATCGGCGAAGgtgggaatct ... gtggatgcagGTTCGTATGGCAGTCTTTAGTCAGCATCATGTTGATGGCTTGGATCTCTCA
EST: gi|37828058|gb|BJ586070.1|BJ586070
EST:     TTTAGATCGGCGAAG                         GTTCGTATGGCAGTCTTTAGTCAGCATCATGTTGATGGCTTGGATCTCTCA
genomic: TTTAGATCGGCGAAGgtgggaatct ... gtggatgcagGTTCGTATGGCAGTCTTTAGTCAGCATCATGTTGATGGCTTGGATCTCTCA
EST: gi|162187556|gb|FC363818.1|FC363818
EST:     TTTCAGGAGAGTTGGAGCCTATATCCGGAACCGTGTTTAGATCGGCGAAG                         GTTCGTATGGCAGTCTTTAGTCAGCATCATGTTGATGGCTTGGATCTCTCA
genomic: TTTCAGGAGAGTTGGAGCCTATATCCGGAACCGTGTTTAGATCGGCGAAGgtgggaatct ... gtggatgcagGTTCGTATGGCAGTCTTTAGTCAGCATCATGTTGATGGCTTGGATCTCTCA
EST: gi|37836283|gb|BJ594291.1|BJ594291
EST:     TTTCAGGAGAGTTGGAGCCTATATCCGGAACCGTGTTTAGATCGGCGAAG                         GTTCGTATGGCAGTCTTTAGTCAGCATCATGTTGATGGCTTGGATCTCTCA
genomic: TTTCAGGAGAGTTGGAGCCTATATCCGGAACCGTGTTTAGATCGGCGAAGgtgggaatct ... gtggatgcagGTTCGTATGGCAGTCTTTAGTCAGCATCATGTTGATGGCTTGGATCTCTCA
EST: gi|162174579|gb|FC350234.1|FC350234
EST:     TTTCAGGAGAGTTGGAGCCTATATCCGGAACCGTGTTTAGATCGGCGAAG                         GTTCGTATGGCAGTCTTTAGTCAGCATCATGTTGATGGCTTGGATCTCTCA
genomic: TTTCAGGAGAGTTGGAGCCTATATCCGGAACCGTGTTTAGATCGGCGAAGgtgggaatct ... gtggatgcagGTTCGTATGGCAGTCTTTAGTCAGCATCATGTTGATGGCTTGGATCTCTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttatcagcttggaagggaaagttctaatcacttgtaatgaaatgtggatgcagGTTCGTATGGCAGTCTTTAGTCAGCATCATGTTGATGGCTTGGATCTCTCATCAACGCCTCTTCTCTACATGGCACACTGTTTCCCT
                       ttctaat  putative branch site (score: 2)
                                    taatgaaat  TA-rich tract