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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGCTTTGTGTTCATGGTGGCCTTTCTCCAGACATTCGATCAATAGATCAGgttctctctctagcttccttctcagttgctggtcaagctcaatattgtccaagtttcagactgtccatttaaattcgccgcagtaaaaaagacaggaaat...

Basic information

species Glycine max
transcript GLYMA0048S00290.3
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA0048S00290.2 (Glycine max), 5'ss of exon 6
lower sequence: Vv10s0071g00950.t01 (Vitis vinifera), 5'ss of exon 6
GTGCTTTGTGTTCATGGTGGCCTTTCTCCAGACATTCGATCAATAGATCAGgttctct----ctctagcttccttctcagttgctggtcaagctcaatattgtccaagtttcagactgtccatttaaattcgccgcagtaaaaaagacaggaaat---
||||||||||| |||||||| ||||| || ||| ||||| |||| |||||||||   |    ||||      |  || |  |     | | | | |  | | || |  || |    | ||   ||| ||| ||   | |  |    ||     ||   
GTGCTTTGTGTCCATGGTGGTCTTTCACCTGACGTTCGAACAATTGATCAGgtttctttgccctctgatcgtcaactgaaatttctat-atgtttagcaatatcaagattccgatatatc---ttatatttgc---atttgattttacttcttatctc
















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|209728247|gb|BW651682.1|BW651682
EST:     TGCTTTGTGTTCATGGTGGCCTTTCTCCAGACATTCGATCAATAGATCAG                         ATAAGGGTCATTGAGAGGAACTGTGAAATTCCTCATGAGGGACCATTTTGT
genomic: TGCTTTGTGTTCATGGTGGCCTTTCTCCAGACATTCGATCAATAGATCAGgttctctctc ... tttatgacagATAAGGGTCATTGAGAGGAACTGTGAAATTCCTCATGAGGGACCATTTTGT
EST: gi|298172509|gb|HO019549.1|HO019549
EST:     TGTTTTGTGTTCATGGTGGCCTTTCTCCAGACATTCGATCAATAGATCAG                         ATAAGGGTCATTGAGAGGAACTGTGAGATTCCTCATGAGGGACCATTTTGT
genomic: TGCTTTGTGTTCATGGTGGCCTTTCTCCAGACATTCGATCAATAGATCAGgttctctctc ... tttatgacagATAAGGGTCATTGAGAGGAACTGTGAAATTCCTCATGAGGGACCATTTTGT
EST: gi|151410851|gb|EV280666.1|EV280666
EST:     TGCTTTGTGTTCATGGTGGCCTTTCTCCAGACATTCGATCAATAGATCAG                         ATAAGGGTCATTGAGAGGAACTGTGAAATTCCTCATGAGGGACCATTTTGT
genomic: TGCTTTGTGTTCATGGTGGCCTTTCTCCAGACATTCGATCAATAGATCAGgttctctctc ... tttatgacagATAAGGGTCATTGAGAGGAACTGTGAAATTCCTCATGAGGGACCATTTTGT
EST: gi|192323250|gb|FK018961.1|FK018961
EST:     TGCTTTGTGTTCATGGTGGCCTTTCTCCAGACATTCGATCAATAGATCAG                         ATAAGGGTCATTGAGAGGAACTGTGAAATTCCTCATGAGGGACCATTTTGT
genomic: TGCTTTGTGTTCATGGTGGCCTTTCTCCAGACATTCGATCAATAGATCAGgttctctctc ... tttatgacagATAAGGGTCATTGAGAGGAACTGTGAAATTCCTCATGAGGGACCATTTTGT
EST: gi|298178347|gb|HO024082.1|HO024082
EST:     TGCTTTGTGTCCATGGTGGCCTTTCTCCAGACATTCGATCAATAGATCAG                         ATAAGGGTCATTGAGAGGAACTGT
genomic: TGCTTTGTGTTCATGGTGGCCTTTCTCCAGACATTCGATCAATAGATCAGgttctctctc ... tttatgacagATAAGGGTCATTGAGAGGAACTGT
EST: gi|16345163|gb|BI970758.1|BI970758
EST:     TGCTTTGTGTTCATGGTGGCCTTTCTCCAGACATTCGATCAATAGATCAG                         ATAAGGGTCATTGAGAGGAACTGTGAAATTCCTCATGAGGGACCATTTTGT
genomic: TGCTTTGTGTTCATGGTGGCCTTTCTCCAGACATTCGATCAATAGATCAGgttctctctc ... tttatgacagATAAGGGTCATTGAGAGGAACTGTGAAATTCCTCATGAGGGACCATTTTGT
EST: gi|192296025|gb|FG989419.1|FG989419
EST:     TGCTTTGTGTTCATGGTGGCCTTTCTCCAGACATTCGATCAATAGATCAG                         ATAAGGGTCATTGAGAGGAACTGTGAAATTCCTCATGAGGGACCATTTTGT
genomic: TGCTTTGTGTTCATGGTGGCCTTTCTCCAGACATTCGATCAATAGATCAGgttctctctc ... tttatgacagATAAGGGTCATTGAGAGGAACTGTGAAATTCCTCATGAGGGACCATTTTGT
EST: gi|254340657|gb|GR854385.1|GR854385
EST:     TGCTTTGTGTTCATGGTGGCCTTTCTCCAGACATTCGATCAATAGATCAG                         ATAAGGGTCATTGAGAGGAACTGTGAAATTCCTCATGAGGGACCATTTTGT
genomic: TGCTTTGTGTTCATGGTGGCCTTTCTCCAGACATTCGATCAATAGATCAGgttctctctc ... tttatgacagATAAGGGTCATTGAGAGGAACTGTGAAATTCCTCATGAGGGACCATTTTGT
EST: gi|209728248|gb|BW651683.1|BW651683
EST:     TCCAGACATTCGATCAATAGATCAG                         ATAAGGGTCA-TGAGAGGGAACTGTGAAATTCCTCATGAGGGACCATTTTG
genomic: TCCAGACATTCGATCAATAGATCAGgttctctctc ... tttatgacagATAAGGGTCATTGAGA-GGAACTGTGAAATTCCTCATGAGGGACCATTTTG
EST: gi|193307325|gb|FK271109.1|FK271109
EST:     CAATAGATCAG                         ATAAGGGTCATTGAGAGGAACTGTGAAATTCCTCATGAGGGACCATTTTGT
genomic: CAATAGATCAGgttctctctc ... tttatgacagATAAGGGTCATTGAGAGGAACTGTGAAATTCCTCATGAGGGACCATTTTGT
EST: gi|31473271|gb|CD415284.1|CD415284
EST:     TCAATAGATCAG                         ATAAGGGTCATTGAGAGGAACTGTGAAATTCCTCATGAGGGACCATTTTGT
genomic: TCAATAGATCAGgttctctctc ... tttatgacagATAAGGGTCATTGAGAGGAACTGTGAAATTCCTCATGAGGGACCATTTTGT
EST: gi|254340656|gb|GR854384.1|GR854384
EST:     TGCTTTGTGTTCATGGTGGCCTTTCTCCAGACATTCGATCAATAGATCAG                         ATAAGGGTCATTGAGAGGAACTGTGAAATTCCTCATGAGGGACCATTTTGT
genomic: TGCTTTGTGTTCATGGTGGCCTTTCTCCAGACATTCGATCAATAGATCAGgttctctctc ... tttatgacagATAAGGGTCATTGAGAGGAACTGTGAAATTCCTCATGAGGGACCATTTTGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGCTTTGTGTTCATGGTGGCCTTTCTCCAGACATTCGATCAATAGATCAGgttctctctctagcttccttctcagttgctggtcaagctcaatattgtccaagtttcagactgtccatttaaattcgccgcagtaaaaaagacaggaaat

- - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - AGATCA