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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTCGTCGTTTGGCGCCCTCCTGAGTTTGCGAGAGATCTCTTACCCAACTATTTCAAACACAACAACTTTTCCAGCTTTGTGCGACAACTAAATACTTATgtaagctccgcattttacacaaatatgatgataattcagatggagcgttctcacatagctaagtagcgtttcagtgagaagtgcgattcactcgaggaag...

Basic information

species Physcomitrella patens
transcript PP1S19_153V6.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S19_153V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA07G36370.1 (Glycine max), 5'ss of exon 1
CTTCGTCGTTTGGCGCCCTCCTGAGTTTGCGAGAGATCTCTTACCCAACTATTTCAAACACAACAACTTTTCCAGCTTTGTGCGACAACTAAATACTTATgtaagc-tccgcatttta---cacaaatatgatgataattcagatggagcgttctcacatagctaagtagcgtttcagtgagaagtgcgattcactcgaggaag
 || || || |||   || ||||||||||| ||||||||  | |||||||||||||||||||||||||| || ||||||||  | ||||| || || ||||||||| |||  || ||     |   |  |    | ||| |  ||    | |  |  | |   |      | ||    |   | ||     ||  || |     
ATTTGTTGTGTGGAAGCCCCCTGAGTTTGCCAGAGATCTTCTTCCCAACTATTTCAAACACAACAACTTCTCAAGCTTTGTTAGGCAACTCAACACCTATgtaagcatccttatcttttcttatgtacttctctacaatccctattcttcatctttgcttcatttcacttcattgagtttgaaggtaaagctctttccat----

upper sequence: PP1S19_153V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA20G08250.1 (Glycine max), 5'ss of exon 1
CTTCGTCGTTTGGCGCCCTCCTGAGTTTGCGAGAGATCTCTTACCCAACTATTTCAAACACAACAACTTTTCCAGCTTTGTGCGACAACTAAATACTTATgtaagc-tccgcatttta---cacaaatatgatgataattcagatggagcgttctcacatagctaagtagcgtttcagtgagaagtgcgattcactcgaggaag
 || || || ||| | || ||||||||||| ||||||||  | ||||||||||| |||||||||||||| || ||||||||  | ||||| || || ||||||||| |||  || ||     |   |  |  | | | | |  |     | |  |||| |   | |||        | | | |  | |  ||||   ||     
ATTTGTTGTCTGGAGGCCCCCTGAGTTTGCAAGAGATCTTCTTCCCAACTATTTTAAACACAACAACTTCTCAAGCTTTGTTAGGCAACTCAACACCTATgtaagcatccttatcttttcttatgtacttctttacactccctactcttcatcttcacttcattgagtttgaaggtaattaaagat-cttttcatgtgaac---

upper sequence: PP1S19_153V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA04G04200.1 (Glycine max), 5'ss of exon 1
CTTCGTCGTTTGGCGCCCTCCTGAGTTTGCGAGAGATCTCTTACCCAACTATTTCAAACACAACAACTTTTCCAGCTTTGTGCGACAACTAAATACTTATgtaagctccgcattt-tacacaaatatgatga---taattcag-atggagcgttctcacatagctaagtagcgtttcagtgagaagtgcgattcactcgaggaag
||||||||||||||| |||||||| || || ||||| ||  | || ||||| ||||||||||||||||| |||||||| || || ||||| || || ||||||   |    | ||  ||||  |||   |     || |||   |   |  ||| ||   |   |   ||   |  ||||   || || |||  ||| |      
CTTCGTCGTTTGGCGTCCTCCTGAATTCGCCAGAGACCTTCTTCCTAACTACTTCAAACACAACAACTTCTCCAGCTTCGTTCGCCAACTCAACACCTATgtattatatttacttacacactgatacactatctctagttcttcaattattgttttcttttctttttatattctgacagttttaaatg-gatgaactag------

upper sequence: PP1S19_153V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA06G04390.1 (Glycine max), 5'ss of exon 1
CTTCGTCGTTTGGCGCCCTCCTGAGTTTGCGAGAGATCTCTTACCCAACTATTTCAAACACAACAACTTTTCCAGCTTTGTGCGACAACTAAATACTTATgtaagctccgcattttacacaa-atatgatgataattcagatggagcgttctcacatagctaagtagcgtttcagtgagaagtgcgattcactcgaggaag
||||||||||||||| ||||||||||| || ||||| ||  | || ||||| ||||||||||||||||| || ||||| || || || || || || ||||||   |   || || |||||  ||||  |  |  ||||| |         ||  |||  |||  |  |||    | | | |   || | |          
CTTCGTCGTTTGGCGTCCTCCTGAGTTCGCAAGAGACCTTCTTCCTAACTACTTCAAACACAACAACTTCTCAAGCTTCGTTCGCCAGCTCAACACCTATgtattatattcactt-acacactatatc-tagttcttcagtta-------ttcttataattaa-catggttaattttaaatgcatgaattag---------

upper sequence: PP1S19_153V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA14G09190.1 (Glycine max), 5'ss of exon 1
CTTCGTCGTTTGGCGCCCTCCTGAGTTTGCGAGAGATCTCTTACCCAACTATTTCAAACACAACAACTTTTCCAGCTTTGTGCGACAACTAAATACTTATgtaagctccgcattttacacaaatatgatgataattcagatggagcgttctcacatagctaagt----agcgtttcagtgagaagtgcgattcactcgaggaag
||||||||||||| | || || ||||| || || || ||  | |||||||||||||||||||||||||| |||||||| || || ||||| || || |||||| |   | ||       || || |        ||    |      || | |  |   |   |     ||  |   ||  |||     || || || |     
CTTCGTCGTTTGGAGACCCCCCGAGTTCGCTAGGGACCTTCTCCCCAACTATTTCAAACACAACAACTTCTCCAGCTTCGTTCGCCAACTCAACACCTATgtatgtatcacacacccatcatatctctcttctttttttcttttttttttttaagttcttttatcgaaggcaatcatgtttgaaacattat-caatcaata---

upper sequence: PP1S19_153V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA17G35980.1 (Glycine max), 5'ss of exon 1
CTTCGTCGTTTGGCGCCCTCCTGAGTTTGCGAGAGATCTCTTACCCAACTATTTCAAACACAACAACTTTTCCAGCTTTGTGCGACAACTAAATACTTATgtaagctccgcattttacacaaatatga-tgataattcagatggagcgttctcacatagctaagtagcgtttcagtgaga---agtgcgattcactcgaggaag
||||||||||||| | || || || || || || || ||  | |||||||||||||||||||||||||| |||||||| || || ||||| || || |||||| |   |  |       ||  | |   |  |  |||  |        ||  || |   |  |   |  |    |   |   | |  ||  ||||  |     
CTTCGTCGTTTGGAGACCCCCCGAATTCGCTAGGGACCTTCTCCCCAACTATTTCAAACACAACAACTTCTCCAGCTTCGTTCGCCAACTCAACACCTATgtatgtatcatacacccatcatgtctctcttctttttcttaatttctactcatacgttcttccgagacaatcttattcaatacattatgaaacactaaat----

upper sequence: PP1S19_153V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA14G04070.1 (Glycine max), 5'ss of exon 1
CTTCGTCGTTTGGCGCCCTCCTGAGTTTGCGAGAGATCTCTTACCCAACTATTTCAAACACAACAACTTTTCCAGCTTTGTGCGACAACTAAATACTTATgtaagc-tccgcattttacacaaatatga---tgataattcagatggagcgttctcacatagctaagtagcgt-ttcagtgagaagtgcgattcactcgaggaag
 || || ||  || | || || || ||||| ||||||||  | |||||||||||||| ||||||||||| || ||||||||  | || |||||||| ||||| ||  |||   | ||  | | |||| |   |  |  ||| |||  | | |||     |   |  ||       |   ||| ||         | ||       
ATTTGTTGTGAGGAGGCCCCCAGAATTTGCTAGAGATCTTCTTCCCAACTATTTCAAGCACAACAACTTCTCAAGCTTTGTTAGGCAGCTAAATACCTATgtgagaatccatctcttctatatatataacttttttggttctgatctatccttcattattgcttttgtgatacacttcttgacaaagttagcctaatcat-----

upper sequence: PP1S19_153V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA02G44670.1 (Glycine max), 5'ss of exon 1
CTTCGTCGTTTGGCGCCCTCCTGAGTTTGCGAGAGATCTCTTACCCAACTATTTCAAACACAACAACTTTTCCAGCTTTGTGCGACAACTAAATACTTATgtaagc-tccgcattttacacaaatatga---tgataattcagatggagcgttc--tcacatagctaagtagcgtttca-gtgagaagtgcgattcactcgaggaag
 || || ||  || | || || |||||||| ||||||||  | |||||||||||||| ||||| ||||| || ||||||||  | || |||||||| ||||| ||  |||   | ||  | | |||| |   |  |  ||| |||  | | |||  |    |   |  |   |  |||  |  |||  |       | ||       
ATTTGTTGTGAGGAGGCCCCCAGAGTTTGCTAGAGATCTTCTTCCCAACTATTTCAAGCACAATAACTTCTCAAGCTTTGTTAGGCAGCTAAATACCTATgtgagaatccatctcttctatatatataactttttttgttctgatctatccttcattattgtttttgtgctacacttcttgacagagttatagcctaatc-------

upper sequence: PP1S19_153V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: Vv06s0009g02730.t01 (Vitis vinifera), 5'ss of exon 1
CTTCGTCGTTTGGCGCCCTCCTGAGTTTGCGAGAGATCTCTTACCCAACTATTTCAAACACAACAACTTTTCCAGCTTTGTGCGACAACTAAATACTTATgtaagc-tccgcattttacacaaatatgatgataattcagatggagcgttctcacatagctaagtagcgt-ttcagtgagaagtgcgattcactcgaggaag
||| || |||||| | || ||||||||||| || |||||| | |||||||| ||||| ||||||||||| |||||||||||  | || || ||||| ||||| ||  | |    || || |        |     |     |    |  |||| |    || | |   |   |  ||   |  | |  |||| | | ||   
CTTTGTTGTTTGGAGACCCCCTGAGTTTGCCAGGGATCTCCTCCCCAACTACTTCAAGCACAACAACTTCTCCAGCTTTGTTAGGCAGCTCAATACCTATgtgagagtgcatcattaaccctctctctctctctctctctctctctctctctctctctcctgattcaagcactgtgtttcattttcacttcattgggggt--

upper sequence: PP1S19_153V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: Vv18s0001g10380.t01 (Vitis vinifera), 5'ss of exon 1
CTTCGTCGTTTGGCGCCCTCCTGAGTTTGCGAGAGATCTCTTACCCAACTATTTCAAACACAACAACTTTTCCAGCTTTGTGCGACAACTAAATACTTATgtaagctccgcattttacacaaatatgatgataattcagatggagcgttctcacatagctaagta---gcgtttcagtgagaagtgcgattcactcgaggaag-----------------------------------------
|||||| || ||||| ||||||||||| ||  | |||||| | ||||| || ||||||||||||||||| || ||||| ||  |||| || || || |||||| ||    |  | |   |    |      |  |||| || |    |    |  || ||   ||      | |   ||| |   ||   | | |      |                                          
CTTCGTGGTGTGGCGTCCTCCTGAGTTCGCTCGCGATCTCCTTCCCAATTACTTCAAACACAACAACTTCTCAAGCTTCGTCAGACAGCTCAACACCTATgtatgcctt-ctctctcttcccccacttcccttcttcaaatcgtttctggagatgtaactggttatatatatatatatgaaacaagcttcttattgtttttactgatttagattttgttttgcttgcttgcttccggaaactag

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|67719956|gb|BJ970215.1|BJ970215
EST:     ATTTCAAACACAACAACTTTTCCAGCTTTGTGCGACAACTAAATACTTAT                         GGATTCAGGAAGGTGGTGCCCGACCGGTGGGAGTTCGCGAACGATTTTTTC
genomic: ATTTCAAACACAACAACTTTTCCAGCTTTGTGCGACAACTAAATACTTATgtaagctccg ... atggtgacagGGATTCAGGAAGGTGGTGCCCGACCGGTGGGAGTTCGCGAACGATTTTTTC