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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCCCTTCATCGTCGCTCACAAAAAGGCCTCCCTCAACAGACTCAAGTCCGGCGCCGAAAGGGTCTCCGTCACCATCGACATCTACAACCAAGGAACCTCgtacgttccgatctaccatgaaatcgttcatattttttcaattttcaatttttgttgtcttagatcccaatttcccctttgcatgcatgccctcattcct...

Basic information

species Glycine max
transcript GLYMA19G27250.3
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G27250.3 (Glycine max), 5'ss of exon 1
lower sequence: Vv14s0068g01370.t01 (Vitis vinifera), 5'ss of exon 1
TCCCCTTCATCGTCGCTCACAAAAAGGCCTCCCTCAACAGACTCAAGTCCGGCGCCGAAAGGGTCTCCGTCACCATCGACATCTACAACCAAGGAACCTCgtacgttccgatctaccatgaaatcgttcatattttttcaattttcaatttttgttgtcttagatcccaat--ttcccctttgcatgcatgccctc----attcct-
| || ||||| || || ||||| |||||||| |||| ||| || ||||||||||||||  | ||||||||  |||||||||||||||| |||||| || ||||||||   ||   |  | | |||  | |||| ||  | || |  |   | ||   |||  ||||| |||  ||    |||| ||       ||     ||| || 
TTCCGTTCATTGTGGCCCACAAGAAGGCCTCTCTCACCAGGCTTAAGTCCGGCGCCGAGCGAGTCTCCGTGTCCATCGACATCTACAATCAAGGATCCACgtacgttttcatt--ctgttagatc--tgatatgttaactatgtgga---tctgccctctctgatccaaatattttatatttgaattagctttctttaaaatttctg
















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|6913960|gb|AW395490.1|AW395490
EST:     GGCGCCGAAAGGGTCTCCGTCACCATCGACATCTACAACCAAGGAACCTC                         GACGGCCTATGATGTAAGCTTATCAGACGATAGCTGGCCAAGTGATGCTTT
genomic: GGCGCCGAAAGGGTCTCCGTCACCATCGACATCTACAACCAAGGAACCTCgtacgttccg ... ttttttaaagGACGGCCTATGATGTAAGCTTATCAGACGATAGCTGGCCAAGTGATGCTTT
EST: gi|15815757|gb|BI788032.1|BI788032
EST:     GGCGCCGAAAGGGTCTCCGTCACCATCGACATCTACAACCAACGAACCTC                         GACGGCCTATGATGTAAGCTTATCAGACGATAGCTGGCCAAGTGATGCTTT
genomic: GGCGCCGAAAGGGTCTCCGTCACCATCGACATCTACAACCAAGGAACCTCgtacgttccg ... ttttttaaagGACGGCCTATGATGTAAGCTTATCAGACGATAGCTGGCCAAGTGATGCTTT
EST: gi|7285467|gb|AW597954.1|AW597954
EST:     GGCGCCGAAAGGGTCTCCGTCACCATCGACATCTACAACCAAGGAACCTC                         GACGGCCTATGATGTAAGCT
genomic: GGCGCCGAAAGGGTCTCCGTCACCATCGACATCTACAACCAAGGAACCTCgtacgttccg ... ttttttaaagGACGGCCTATGATGTAAGCT
EST: gi|23064074|gb|BU578847.1|BU578847
EST:     GGCGCCGAAAGGGTCTCCGTCACCATCGACATCTACAACCAAGGAACCTC                         GACGGCCTATGATGTAAGCTTATCAGACGATAGCTGGCCAAGTGATGCTTT
genomic: GGCGCCGAAAGGGTCTCCGTCACCATCGACATCTACAACCAAGGAACCTCgtacgttccg ... ttttttaaagGACGGCCTATGATGTAAGCTTATCAGACGATAGCTGGCCAAGTGATGCTTT
EST: gi|207794125|gb|GD765345.1|GD765345
EST:     GGCGCCGAAAGGGTCTCCGTCACCATCGACATCTACAACCAAGGAACCTC                         GACGGCCTATGATGTAAGCTTATCAGACGATAGCTGG
genomic: GGCGCCGAAAGGGTCTCCGTCACCATCGACATCTACAACCAAGGAACCTCgtacgttccg ... ttttttaaagGACGGCCTATGATGTAAGCTTATCAGACGATAGCTGG
EST: gi|13791278|gb|BG653869.1|BG653869
EST:     GGCGCCGAAAGGGTCTCCGTCACCATCGACATCTACAACCAAGGAACCTC                         GACGGCCTATGATGTAAGCTTATCAGACGATAGCTGGCCAAGTGATGCTTT
genomic: GGCGCCGAAAGGGTCTCCGTCACCATCGACATCTACAACCAAGGAACCTCgtacgttccg ... ttttttaaagGACGGCCTATGATGTAAGCTTATCAGACGATAGCTGGCCAAGTGATGCTTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCCCCTTCATCGTCGCTCACAAAAAGGCCTCCCTCAACAGACTCAAGTCCGGCGCCGAAAGGGTCTCCGTCACCATCGACATCTACAACCAAGGAACCTCgtacgttccgatctaccatgaaatcgttcatattttttcaattttcaatttttgttgtcttagatcccaatttcccctttgcatgcatgccctcattcct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tttcccc