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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCTTGAACCATTCTTCAATGCTGCTGCTTCACAGTTCATACTTGGTCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccctcttgttcatttaattgaaatatgatttttggtccattaattgctttccacttgcaagctatttcattgagaaaaatgttagcaacgcag...

Basic information

species Glycine max
transcript GLYMA07G32190.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G32190.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os05g15160.1 (Oryza sativa), 5'ss of exon 6
CTCTTGAACCATTCTTCAATGCTGCTGCTTCACAGTTCATACTTGGTCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccctcttgttcatttaattgaaatatgatttttggtccattaattgctttccact--tgcaagctatttcattgagaaaaatgttagcaacgcag-
||||||||||||| |||||||| |||||||||||||| || ||||| ||   | | ||  | ||  ||||| | || || ||||| ||||| || |||||  ||  | |   |  |||  |||   |   |    |    || |  |  |||  ||    |||||   |   |||    ||  | |||  ||  |  | 
CTCTTGAACCATTTTTCAATGCGGCTGCTTCACAGTTTATCCTTGGCCAGCAAGTTCCATTGACGCTGTGGTTATCTCTTGCTCCGGTTGTGATAGgtaatctcattatgcct--tttgcttgtgttcctagcagtacatcacttgtatcttaacatcaatgcaaataaggacatatgaaagtaggttt-catggttgt
















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|7692862|gb|AW760961.1|AW760961
EST:     TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG                         GTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
genomic: TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccc ... taatatacagGTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
EST: gi|120534376|gb|EH262509.1|EH262509
EST:     TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG                         GTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAAC
genomic: TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccc ... taatatacagGTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAAC
EST: gi|23728678|gb|BU762399.1|BU762399
EST:     TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG                         GTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
genomic: TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccc ... taatatacagGTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
EST: gi|7691785|gb|AW759906.1|AW759906
EST:     TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG                         GTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
genomic: TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccc ... taatatacagGTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
EST: gi|7691041|gb|AW759175.1|AW759175
EST:     TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG                         GTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
genomic: TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccc ... taatatacagGTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
EST: gi|13480400|gb|BG509743.1|BG509743
EST:     TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG                         GTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
genomic: TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccc ... taatatacagGTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
EST: gi|120534368|gb|EH262501.1|EH262501
EST:     TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG                         GTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
genomic: TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccc ... taatatacagGTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
EST: gi|7796788|gb|AW782182.1|AW782182
EST:     TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG                         GTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
genomic: TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccc ... taatatacagGTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
EST: gi|213587747|gb|DB955609.1|DB955609
EST:     TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG                         GTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
genomic: TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccc ... taatatacagGTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
EST: gi|8669180|gb|BE190287.1|BE190287
EST:     TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG                         GTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
genomic: TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccc ... taatatacagGTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
EST: gi|15284741|gb|BI468632.1|BI468632
EST:     TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG                         GTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
genomic: TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccc ... taatatacagGTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
EST: gi|23063798|gb|BU578627.1|BU578627
EST:     TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG                         GTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
genomic: TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccc ... taatatacagGTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
EST: gi|208296497|gb|GE090115.1|GE090115
EST:     TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG                         GTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
genomic: TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccc ... taatatacagGTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
EST: gi|26269548|gb|CA820611.1|CA820611
EST:     TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG                         GTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
genomic: TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccc ... taatatacagGTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
EST: gi|15199917|gb|BI424075.1|BI424075
EST:     TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG                         GTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
genomic: TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccc ... taatatacagGTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
EST: gi|17519248|gb|BM188290.1|BM188290
EST:     TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG                         GTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
genomic: TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccc ... taatatacagGTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
EST: gi|6481941|gb|AW201212.1|AW201212
EST:     TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG                         GTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
genomic: TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccc ... taatatacagGTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
EST: gi|7796582|gb|AW781979.1|AW781979
EST:     TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG                         GTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
genomic: TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccc ... taatatacagGTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
EST: gi|20498205|gb|BQ273135.1|BQ273135
EST:     TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG                         GTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
genomic: TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccc ... taatatacagGTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
EST: gi|20814778|gb|BQ299256.1|BQ299256
EST:     TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTTTTGTTATTG                         GTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
genomic: TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccc ... taatatacagGTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
EST: gi|17153411|gb|BM143344.1|BM143344
EST:     TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG                         GTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
genomic: TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccc ... taatatacagGTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
EST: gi|193649523|gb|FK597990.1|FK597990
EST:     TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG                         GTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
genomic: TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccc ... taatatacagGTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
EST: gi|7691923|gb|AW760040.1|AW760040
EST:     TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG                         GTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
genomic: TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccc ... taatatacagGTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
EST: gi|8669191|gb|BE190298.1|BE190298
EST:     TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG                         GTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA
genomic: TCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccc ... taatatacagGTGTGTCCATGGCATCTTTGACTGAGCTCTCGTTCAACTGGGTCGGCTTCA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTCTTGAACCATTCTTCAATGCTGCTGCTTCACAGTTCATACTTGGTCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTGgtaacatccctcttgttcatttaattgaaatatgatttttggtccattaattgctttccacttgcaagctatttcattgagaaaaatgttagcaacgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccctctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gagaaaaa