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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACGGGAAAGACCATGCTTGCCAAGGCAGTCGCTCATCACACTACCGCCGCTTTCATCCGTGTTGTTGGTTCTGAGTTTGTACAAAAGTATCTCGGAGAGgtaaggcttgcggcataatcgcctcatagagtgtcgctgtctctgttgctgtgaccagaagctttcttttagtttatctctactcatgtgatgagttcaa...

Basic information

species Physcomitrella patens
transcript PP1S243_67V6.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S243_67V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G038126_T01 (Zea mays), 5'ss of exon 2
AACGGGAAAGACCATGCTTGCCAAGGCAGTCGCTCATCACACTACCGCCGCTTTCATCCGTGTTGTTGGTTCTGAGTTTGTACAAAAGTATCTCGGAGAGgtaaggcttgcggcataatcgcctcatagagtgtcgctgt---ctctgttgctgtgaccagaagctttcttttagtttatctctact-catgtgatgagttcaa
 || || ||||||||||||||||| |||||||| ||||| || ||||| ||||| ||| | || |||||||| ||||||||||| |||||  | || ||||||||  ||| | |||    ||    || | || |  | |    ||| |||   ||   | ||  | |  |  | || ||   ||   | |    |  || |  
TACTGGCAAGACCATGCTTGCCAAAGCAGTCGCACATCATACCACCGCTGCTTTTATCAGAGTCGTTGGTTCGGAGTTTGTACAGAAGTACTTGGGCGAGgtaag--ttgggacatgggagctat-tataatgccaatatgaattcttttggattggatataaaatgtagtg-aattcataggtatggcgttgcctaggtcctg

upper sequence: PP1S243_67V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G090904_T01 (Zea mays), 5'ss of exon 2
AACGGGAAAGACCATGCTTGCCAAGGCAGTCGCTCATCACACTACCGCCGCTTTCATCCGTGTTGTTGGTTCTGAGTTTGTACAAAAGTATCTCGGAGAGgtaaggcttgcggcataatcgcctcatagagtgtcgctgtctctgttgc-tgtgaccagaagctttcttttagtttatctctactcatgtgatgagttcaa--
 || || ||||||||||||||||| ||||| || ||||| || || || ||||| ||| | || || ||||| |||||||| ||||||||  | || ||||||||  ||| ||    || |  ||  |   || | |  | |  ||||  | | |   | ||    ||  |   |  | |    | |   | | |||| |   
TACTGGCAAGACCATGCTTGCCAAAGCAGTTGCACATCATACCACTGCTGCTTTTATCAGGGTCGTCGGTTCAGAGTTTGTTCAAAAGTACTTGGGTGAGgtaag--ttg-ggagctattgagtcccaatatgactccttttgagttggatataaaatgtagtgaactgatgcatgttataagattaatgggttagtttatgc

upper sequence: PP1S243_67V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA11G31470.1 (Glycine max), 5'ss of exon 2
AACGGGAAAGACCATGCTTGCCAAGGCAGTCGCTCATCACACTACCGCCGCTTTCATCCGTGTTGTTGGTTCTGAGTTTGTACAAAAGTATCTCGGAGAGgtaaggcttgcggcataatcgcctcatagagtgtcgctgtctctgttgctgtgaccagaagctttcttttagtttatctctactcatgtgatgagttcaa---
 || || || || ||||||||||| || || ||| |||| || || ||||| |||||| | ||||| || ||||||||||| ||||||||||| || |||||| |  ||      | |||   ||||   |   || |||      || ||| ||         | | || |||| | | |    ||     |  | |||   
CACTGGCAAAACAATGCTTGCCAAAGCTGTTGCTAATCATACCACTGCCGCCTTCATCAGGGTTGTAGGATCTGAGTTTGTGCAAAAGTATCTTGGTGAGgtatgatttttaa-gtcatc--ttcatttggatgcgatgttgacaatgttgtaacttactctgctatctttgtttctttttgaaaattatgggtttccaattc

upper sequence: PP1S243_67V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: AT5G58290.1 (Arabidopsis thaliana), 5'ss of exon 2
AACGGGAAAGACCATGCTTGCCAAGGCAGTCGCTCATCACACTACCGCCGCTTTCATCCGTGTTGTTGGTTCTGAGTTTGTACAAAAGTATCTCGGAGAGgtaaggcttgcggcataatcgcctcatagagtgtcgctgtctctgttgctgtgaccagaagctttcttttagtttatctctactcatgtgatgagttcaa
 || |||||||| ||| | || ||||| || ||  ||||||| || || || |||||  | |||||||| || |||||||| |||||||||||||| ||||||     |     || || || | || ||  ||    ||| || |||  | ||    |     |   | | |   | | || |                
TACTGGAAAGACTATGTTGGCTAAGGCTGTTGCCAATCACACAACTGCTGCCTTCATTAGGGTTGTTGGATCCGAGTTTGTGCAAAAGTATCTCGGCGAGgta-----ttaaaaatcatagctttattgaaggtttaggtc-ctattga-gcgattctatttggtgactaactggttttttaattgcag-----------

upper sequence: PP1S243_67V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: EFJ04233 (Selaginella moellendorffii), 5'ss of exon 2
AACGGGAAAGACCATGCTTGCCAAGGCAGTCGCTCATCACACTACCGCCGCTTTCATCCGTGTTGTTGGTTCTGAGTTTGTACAAAAGTATCTCGGAGAGgtaagg--cttgcggcataatcgcctcatagagtgtcgctgtctctgttgctgtgaccagaagctttcttttagtttatctctactcatgtgatgagttcaa
 || || || ||||||||||| ||||| ||||| || ||||| || |||||||||||||| ||||| || || ||||| || || |||||||| ||||||||  ||  | |      |  ||      |  |   | |   ||| ||   | |                                                 
CACTGGGAAAACCATGCTTGCAAAGGCCGTCGCGCACCACACCACTGCCGCTTTCATCCGCGTTGTGGGCTCGGAGTTCGTCCAGAAGTATCTTGGAGAGgtgtggaaccttttcttttttctttctcttcacgcttgtcttctgtggcacag-------------------------------------------------

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|100439418|gb|BY961923.1|BY961923
EST:     CTTTCATCCGTGTTGTTGGTTCTGAGTTTGTACAAAAGTATCTCGGAGAG                         GGTCCCCGTATGGTGCGTGATGTGTTCCGACTGGCGAAGGAGAACGCCCCA
genomic: CTTTCATCCGTGTTGTTGGTTCTGAGTTTGTACAAAAGTATCTCGGAGAGgtaaggcttg ... gtggtctcagGGTCCCCGTATGGTGCGTGATGTGTTCCGACTGGCGAAGGAGAACGCCCCA
EST: gi|162186125|gb|FC361329.1|FC361329
EST:     CTTTCATCCGTGTTGTTGGATCTGAGTTTGTACAAAAGTATCTCGTAGAG                         GGTCCCCATATGGTGCGTGATGTGTTCCGACTGGCGAAGGAGAACGCCCCA
genomic: CTTTCATCCGTGTTGTTGGTTCTGAGTTTGTACAAAAGTATCTCGGAGAGgtaaggcttg ... gtggtctcagGGTCCCCGTATGGTGCGTGATGTGTTCCGACTGGCGAAGGAGAACGCCCCA
EST: gi|208367978|gb|DC951003.1|DC951003
EST:     TTTGTACAAAAGTATCTCGGAGAG                         GGTCCCCGTATGGTGCGTGATGTGTTCCGACTGGCGAAGGAGAACGCCCCA
genomic: TTTGTACAAAAGTATCTCGGAGAGgtaaggcttg ... gtggtctcagGGTCCCCGTATGGTGCGTGATGTGTTCCGACTGGCGAAGGAGAACGCCCCA
EST: gi|67724576|gb|BJ974835.1|BJ974835
EST:     CTTTCATCCGTGTTGTTGGTTCTGAGTTTGTACAAAAGTATCTCGGAGAG                         GGTCCCCGTATGGTGCGTGATGTGTTCCGACTGGCGAAGGAGAACGCCCCA
genomic: CTTTCATCCGTGTTGTTGGTTCTGAGTTTGTACAAAAGTATCTCGGAGAGgtaaggcttg ... gtggtctcagGGTCCCCGTATGGTGCGTGATGTGTTCCGACTGGCGAAGGAGAACGCCCCA
EST: gi|208398297|gb|DC916436.1|DC916436
EST:     CTTTCATCCGTGTTGTTGGTTCTGAGTTTGTACAAAAGTATCTCGGAGAG                         GATCCCCGTATGGTGCGTGATGTGTTCCGACTGGCGAAGGAGAACGCCCCA
genomic: CTTTCATCCGTGTTGTTGGTTCTGAGTTTGTACAAAAGTATCTCGGAGAGgtaaggcttg ... gtggtctcagGGTCCCCGTATGGTGCGTGATGTGTTCCGACTGGCGAAGGAGAACGCCCCA
EST: gi|37851697|gb|BJ609705.1|BJ609705
EST:     CTTTCATCCGTGTTGTTGGTTCTGAGTTTGTACAAAAGTATCTCGGAGAG                         GGTCCCCGTATGGTGCGTGATGTGTTCCGACTGGCGAAGGAGAACGCCCCA
genomic: CTTTCATCCGTGTTGTTGGTTCTGAGTTTGTACAAAAGTATCTCGGAGAGgtaaggcttg ... gtggtctcagGGTCCCCGTATGGTGCGTGATGTGTTCCGACTGGCGAAGGAGAACGCCCCA
EST: gi|208387168|gb|DC945467.1|DC945467
EST:     TGAGTTTGTACAAAAGTATCTC-GAGAG                         GGTCCCCGTATGGTGCGTGATGTGTTCCGACTGGCGAAGGAGAACGCCCCA
genomic: TGAGTTTGTACAAAAGTATCTCGGAGAGgtaaggcttg ... gtggtctcagGGTCCCCGTATGGTGCGTGATGTGTTCCGACTGGCGAAGGAGAACGCCCCA
EST: gi|37832812|gb|BJ590824.1|BJ590824
EST:     TGTTGTTGGTTCTGAGTTNGTACAAAAAGTATCTCGGAGAG                         GGTCCCCGTATGGTGCGTGATGTGTTCCGACTGGCGAAGGAGAACGCCCCA
genomic: TGTTGTTGGTTCTGAGTTTGTAC-AAAAGTATCTCGGAGAGgtaaggcttg ... gtggtctcagGGTCCCCGTATGGTGCGTGATGTGTTCCGACTGGCGAAGGAGAACGCCCCA