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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGTGCAGTCGAGTTTGAAGTTGGGGATTGCACCAAGATTAATTACCCTCACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttctgcccattatttggttttgcttggctgcagatgtccagtgtttgccgtcggttttgagccctttaccgtggtcattgtcaaatccccataaaactaacgtgatcgtggattacag

Basic information

species Physcomitrella patens
transcript PP1S60_199V6.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S60_199V6.2 (Physcomitrella patens), 5'ss of exon 6
lower sequence: LOC_Os01g50030.1 (Oryza sativa), 5'ss of exon 8
ATGTGCAGTCGAGTTTGAAGTTGGGGATTGCACCAAGATTAATTACCCTCACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttctgcccattatttggttttgcttggctgcagatgtccagtgtttgccgtcggttttgagccctttaccgtggtcattgtcaaatccccataaaactaacgtgatcgtggattacag
 ||  |||| ||||||||||| |  ||||||||||| |  |  |||||  ||    | ||||| |||||||||||||||||||| || || ||||| ||||||  ||| | | ||||||||       |     ||  |||||   || | | ||   |||||   || ||  | | |    |  ||  ||      | |   | |  |               
GTGCTCAGTTGAGTTTGAAGTCGCTGATTGCACCAAAAAGACATACCCAGACAACACGTTTGACGTCATCTACAGTCGTGATACTATCCTTCACATACAAgtac-gttttacacattattta---caacccatttg--gatgttttgtttcttcc--tggtttattgctctacagccta-caacagtttaaatattttcagcttgaaat---------------

upper sequence: PP1S60_199V6.2 (Physcomitrella patens), 5'ss of exon 6
lower sequence: Vv17s0000g02430.t01 (Vitis vinifera), 5'ss of exon 8
ATGTGCAGTCGAGTTTGAAGTTGGGGATTGCACCAAGATTAATTACCCTCACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttctgcccattatttggttttgcttggctgcagatgtccagtgtttgccgtcggttttgagccctt-taccgtggtcattgtcaaatccccataaaactaacgtgatcgtggattacag
 ||  |||| || || || || |  || ||||||||||     || ||| ||    | |||||||| |||||||| ||||| |||||||| |||||||||||||  | |    | || ||  ||    |||       | | | ||    ||    |   | ||  ||| || ||   | ||     |    | |  | |                         
GTGCTCAGTTGAATTCGAGGTAGCTGACTGCACCAAGAAATCATATCCTGACAACACATTTGATGTGATCTACAGCCGTGACACCATTCTTCACATTCAAgtaatatacctttcttttttctgtgggacttttgaatggttatgcatctgttaattttattattctgcctttatattctagtt-ccatttggttcgaaaag------------------------

upper sequence: PP1S60_199V6.2 (Physcomitrella patens), 5'ss of exon 6
lower sequence: Vv01s0011g05220.t01 (Vitis vinifera), 5'ss of exon 7
ATGTGCAGTCGAGTTTGAAGTTGGGGATTGCACCAAGATTAATTACCCTCACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaa--agttctgcccattatttggttttgcttggctgcagatgtccagtgtttgccgtcggttttgagccct-ttaccgtggtcattgtcaaatccccataaaactaacgtgatcgtggattacag
  |    || || ||||| ||||  |||||||||||||  |  || ||| |     | |||||||| |||||||||||||| || ||||| ||||| |||||||  | | ||     ||  |  |  || |  |  |   | ||| | |||     |  |  |   | | | | |||   | ||     |    | |   |                          
TCGCTTGGTTGAATTTGAGGTTGCAGATTGCACCAAGAAAACATATCCTGATAGTACATTTGATGTGATCTACAGTCGTGACACTATTCTTCACATACAAgtaatcattcctatttctttatccgaatttcacgattaaggctgttctgtg---aacaactataaagggtcttgttaattttgtgcacattctgttcttttct------------------------

upper sequence: PP1S60_199V6.2 (Physcomitrella patens), 5'ss of exon 6
lower sequence: Vv01s0011g05200.t01 (Vitis vinifera), 5'ss of exon 8
ATGTGCAGTCGAGTTTGAAGTTGGGGATTGCACCAAGATTAATTACCCTCACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttctgcccattatttggttttgcttggctgcagatgtccagtg--tttgccgtcggttttgagccctttaccgtggtcatt-gtcaaatccccataaaactaacgt-gatcgtggattacag----------------------------------------------
|||    ||||| || || ||||  |||||||||||||  |  || ||| |     | |||||||| |||||||| |||||||||||||| ||||| || |||    | | | |||  ||||     | ||        |||   |     | ||  |    ||||||  |    ||| ||  |||    || | ||  |      ||   |  ||  ||| ||                                                  
ATGCCTGGTCGAATTCGAGGTTGCTGATTGCACCAAGAAAACGTATCCTGATAATACATTTGATGTGATCTACAGCCGTGATACCATTCTTCACATACAGgtagtcattttcacatcctttgcagcggtttcatgaatcatgataaacaactctgaaggatcttttgaatctccgaccatgcacatccaacatagccgaaattttttattattaattatggtttttccttttcttcatataccgccatctgatggtagctgtggaattttttag

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|37822079|gb|BJ580145.1|BJ580145
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|37837860|gb|BJ595868.1|BJ595868
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|37838660|gb|BJ596668.1|BJ596668
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGTTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|15320036|gb|BI487462.1|BI487462
EST:     AGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: AGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|37848070|gb|BJ606078.1|BJ606078
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|162166218|gb|FC343435.1|FC343435
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|37853019|gb|BJ611027.1|BJ611027
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|37826646|gb|BJ584658.1|BJ584658
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|15261270|gb|BI436580.1|BI436580
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|37839613|gb|BJ597621.1|BJ597621
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|208370126|gb|DC951739.1|DC951739
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|37852185|gb|BJ610193.1|BJ610193
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|162215399|gb|FC391895.1|FC391895
EST:     CGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: CGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|37842120|gb|BJ600128.1|BJ600128
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|7207536|gb|AW561535.1|AW561535
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGNAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|162179424|gb|FC355424.1|FC355424
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|18335401|gb|BJ167420.1|BJ167420
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|162174272|gb|FC350655.1|FC350655
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|162242481|gb|FC419175.1|FC419175
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|162277250|gb|FC453680.1|FC453680
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|37849390|gb|BJ607398.1|BJ607398
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|37850446|gb|BJ608454.1|BJ608454
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGTTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|162179425|gb|FC355425.1|FC355425
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|162166105|gb|FC342568.1|FC342568
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|37841195|gb|BJ599203.1|BJ599203
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|18340345|gb|BJ172373.1|BJ172373
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCANCGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|18339681|gb|BJ171708.1|BJ171708
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|162195187|gb|FC368836.1|FC368836
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|162262353|gb|FC437680.1|FC437680
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|37830453|gb|BJ588465.1|BJ588465
EST:     ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
EST: gi|162166219|gb|FC343436.1|FC343436
EST:     ACGCATCTNTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAA                         GATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT
genomic: ACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttct ... tggattacagGATAAACCTGCGCTTTTTCAACGGTTTTATAAATGGTTGAAGCCTGGAGGT