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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTTTGAATCAAATTGTATACGAACTTCCTGCTGAACATCCTCTGGCTGAAAGCAGACCACTCCGGGAACTTCTTGGGCATACTCCTCCTCAGgttctccattttgtatttgattgcttcctagtattacttgatgcatcgtagtcagaggaatttagagtcaaatacttatttgcatgattacacttgatag...

Basic information

species Glycine max
transcript GLYMA11G37290.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G37290.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv01s0010g02580.t01 (Vitis vinifera), 5'ss of exon 4
CTTTTGAATCAAATTGTATACGAACTTCCTGCTGAACATCCTCTGGCTGAAAGCAGACCACTCCGGGAACTTCTTGGGCATACTCCTCCTCAGgttctccattttgtatttgattgcttcctagtattacttgatgcatcgta-gtcagaggaatttagagtca-aatacttatttgcatgat-tacacttgatag
 || ||||||||||||| || || || |||||||| ||||||||||||||||||| |||||| |||||||||||||| || ||||||||||||||| |     ||| | | |||| | |     | | | |||||       |   || |  ||||   | | | | || | ||    ||  | | ||  |||   
GTTCTGAATCAAATTGTTTATGAGCTCCCTGCTGAGCATCCTCTGGCTGAAAGCATACCACTGCGGGAACTTCTTGGCCACACTCCTCCTCAGgtt-tggtcattgcactagattacctttgcatctaaattgatatcctacataacatatcaattatcattgacagtaatgatcaaaatattctgcaaatgaa--
















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|16345795|gb|BI971390.1|BI971390
EST:     TGGCTGAAAGCAGACCACTCCGGGAACTTCTTGGGCATACTCCTCCTCAG                         GTCGTTGCTGGTGGCATACTTGGACTTATAACTGCAGGTATTGGCTATCTA
genomic: TGGCTGAAAGCAGACCACTCCGGGAACTTCTTGGGCATACTCCTCCTCAGgttctccatt ... ctcactgcagGTCGTTGCTGGTGGCATACTTGGACTTATAACTGCAGGTATTGGCTATCTA
EST: gi|8284641|gb|BE022200.1|BE022200
EST:     TGGCTGAAAGCAGACCACTCCGGGAACTTCTTGGGCATACTCCTCCTCAG                         GTCGTTGCTGGTGGCATACTTGGACTTATAACTGCAGGTATTGGCTATCTA
genomic: TGGCTGAAAGCAGACCACTCCGGGAACTTCTTGGGCATACTCCTCCTCAGgttctccatt ... ctcactgcagGTCGTTGCTGGTGGCATACTTGGACTTATAACTGCAGGTATTGGCTATCTA
EST: gi|23057333|gb|BU578007.1|BU578007
EST:     TGGCTGAAAGCAGACCACTCCGGGAACTTCTTGGGCATACTCCTCCTCAG                         GTCGTTGCTGGTGGCATACTTGGACTTATAACTGCAGGTATTGGCTATCTA
genomic: TGGCTGAAAGCAGACCACTCCGGGAACTTCTTGGGCATACTCCTCCTCAGgttctccatt ... ctcactgcagGTCGTTGCTGGTGGCATACTTGGACTTATAACTGCAGGTATTGGCTATCTA
EST: gi|12688156|gb|BG154492.1|BG154492
EST:     TGGCTGAAAGCAGACCACTCCGGGAACTTCTTGGGCATACTCCTCCTCAT                         GTCGTTGCTGGTGGCATACTTGGACTTATGACTGCAGGTATTGGCTATCTA
genomic: TGGCTGAAAGCAGACCACTCCGGGAACTTCTTGGGCATACTCCTCCTCAGgttctccatt ... ctcactgcagGTCGTTGCTGGTGGCATACTTGGACTTATAACTGCAGGTATTGGCTATCTA
EST: gi|298195627|gb|HO044018.1|HO044018
EST:     TGGCTGAAAGCAGACCACTCCGGGAACTTCTTGGGCATACTCCTCCTCAG                         GTCGTTGCTGGTGGCATACTTGGACTTATAACTGCAGGTATTGGCTATCTA
genomic: TGGCTGAAAGCAGACCACTCCGGGAACTTCTTGGGCATACTCCTCCTCAGgttctccatt ... ctcactgcagGTCGTTGCTGGTGGCATACTTGGACTTATAACTGCAGGTATTGGCTATCTA
EST: gi|13478491|gb|BG507946.1|BG507946
EST:     TGGCTGAAAGCAGACCACTCCGGGAACTTCTTGGGCATACTCCTCCTCAG                         GTCGTTGCTGGTGGCATACTTGGACTTATAACTGCAGGTATTGGCTATCTA
genomic: TGGCTGAAAGCAGACCACTCCGGGAACTTCTTGGGCATACTCCTCCTCAGgttctccatt ... ctcactgcagGTCGTTGCTGGTGGCATACTTGGACTTATAACTGCAGGTATTGGCTATCTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTTTTGAATCAAATTGTATACGAACTTCCTGCTGAACATCCTCTGGCTGAAAGCAGACCACTCCGGGAACTTCTTGGGCATACTCCTCCTCAGgttctccattttgtatttgattgcttcctagtattacttgatgcatcgtagtcagaggaatttagagtcaaatacttatttgcatgattacacttgatag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC