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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACGTGGATGCAGGTGCAGCAAAGGAACTGATGGCATATTTGGTCAAGCTGCAGTCCTCACTTTCAGAAGTCAATCAgtaagttaattttagtacactaacattattttaattcttggttataaagatatgcatccggtgagagttgtcctatactagctagtaccttggtatcttg...

Basic information

species Glycine max
transcript GLYMA08G04890.1
intron # 15
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G04890.1 (Glycine max), 5'ss of exon 15
lower sequence: Vv01s0011g05370.t01 (Vitis vinifera), 5'ss of exon 16
AACGTGGATGCAGGTGCAGCAAAGGAACTGATGGCATATTTGGTCAAGCTGCAGTCCTCACTTTCAGAAGTCAATCAgtaagttaattttagtacactaacattattttaattcttggttataaagatatgc--atccggtgagagttgtcctatactagctagtaccttggtatcttg--
|| || ||||||||||| ||||| ||||| ||||||||||||||||| || || || || ||| ||||||| ||| ||||   | ||| |  | ||    | || |||    ||||  || |  | ||   |  ||    |     |  |     | | ||  |   |  |||   |    
AATGTTGATGCAGGTGCTGCAAAAGAACTAATGGCATATTTGGTCAAACTTCAATCTTCCCTTCCAGAAGTTAATAAgta---tgattctcattcaact-ctttttttcctctcttttttgttgaaatgcaccaatttcttttctttcattaggaaatggcagggctcaaggtgcttctta
















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|22932077|gb|BU549216.1|BU549216
EST:     CTGATGGCATATTTGGTCAAGCTGCAGTCCTCACTTTCAGAAGTCAATCA                         GATTGTTAAGGGGATAAGGTCAGATGTTTCGAATGTTGTCCACGGTGATGA
genomic: CTGATGGCATATTTGGTCAAGCTGCAGTCCTCACTTTCAGAAGTCAATCAgtaagttaat ... gtctttttagGATTGTTAAGGGGATAAGGTCAGATGTTTCGAATGTTGTCCACGGTGATGA
EST: gi|58019793|gb|CX706535.1|CX706535
EST:     CTGATGGCATATTTGGTCAAGCTGCAGTCCTCACTTTCAGAAGTCAATCA                         GATTGTTAAGGGGATAAGGTCAGATGTTTCGAATGTTGTCCACGGTGATGA
genomic: CTGATGGCATATTTGGTCAAGCTGCAGTCCTCACTTTCAGAAGTCAATCAgtaagttaat ... gtctttttagGATTGTTAAGGGGATAAGGTCAGATGTTTCGAATGTTGTCCACGGTGATGA
EST: gi|19269460|gb|BM885716.1|BM885716
EST:     CTGATGGCATATTTGGTCAAGCTGCAGTCCTCACTTTCAGAAGTCAATCA                         GATTGTTAAGGGGATAAGGTCAGATGTTTCGAATGTTGTCCACGGTGATGA
genomic: CTGATGGCATATTTGGTCAAGCTGCAGTCCTCACTTTCAGAAGTCAATCAgtaagttaat ... gtctttttagGATTGTTAAGGGGATAAGGTCAGATGTTTCGAATGTTGTCCACGGTGATGA
EST: gi|6567204|gb|AW234815.1|AW234815
EST:     CTGATGGCATATTTGGTCAAGCTGCAGTCCTCACTTTCAGAAGTCAATCA                         GATTGTTAAGGGGATAAGGTCAGATGTTTCGAATGTTGTCCACGGTGATGA
genomic: CTGATGGCATATTTGGTCAAGCTGCAGTCCTCACTTTCAGAAGTCAATCAgtaagttaat ... gtctttttagGATTGTTAAGGGGATAAGGTCAGATGTTTCGAATGTTGTCCACGGTGATGA
EST: gi|12690328|gb|BG156664.1|BG156664
EST:     CTGATGGCATATTTGGTCAAGCTGCAGTCCTCACTTTCAGAAGTCAATCA                         GATTGTTAAGGGGATAAGGTCAGATGTTTCGAATGTTGTCCACGGTGATGA
genomic: CTGATGGCATATTTGGTCAAGCTGCAGTCCTCACTTTCAGAAGTCAATCAgtaagttaat ... gtctttttagGATTGTTAAGGGGATAAGGTCAGATGTTTCGAATGTTGTCCACGGTGATGA
EST: gi|6725125|gb|AW309524.1|AW309524
EST:     TCAGAAGTCAATCA                         GATTGTTAAGGGGATAAGGTCAGATGTTTCGAATGTTGTCCACGGTGATGA
genomic: TCAGAAGTCAATCAgtaagttaat ... gtctttttagGATTGTTAAGGGGATAAGGTCAGATGTTTCGAATGTTGTCCACGGTGATGA
EST: gi|58015854|gb|CX702596.1|CX702596
EST:     CTGATGGCATATTTGGTCAAGCTGCAGTCCTCACTTTCAGAAGTCAATCA                         GATTGTTAAGGGGATAAGGTCAGATGTTTCGAATGTTGTCCACGGTGATGA
genomic: CTGATGGCATATTTGGTCAAGCTGCAGTCCTCACTTTCAGAAGTCAATCAgtaagttaat ... gtctttttagGATTGTTAAGGGGATAAGGTCAGATGTTTCGAATGTTGTCCACGGTGATGA
EST: gi|57574755|gb|CX547730.1|CX547730
EST:     CTGATGGCATATTTGGTCAAGCTGCAGTCCTCACTTTCAGAAGTCAATCA                         GATTGTTAAGGGGATAAGGTCAGATGTTTCGAATGTTGTCCACGGTGATGA
genomic: CTGATGGCATATTTGGTCAAGCTGCAGTCCTCACTTTCAGAAGTCAATCAgtaagttaat ... gtctttttagGATTGTTAAGGGGATAAGGTCAGATGTTTCGAATGTTGTCCACGGTGATGA
EST: gi|120530798|gb|EH258931.1|EH258931
EST:     ATTTGGTCAAGCTGCAGTCCTCACTTTCAGAAGTCAATCA                         GATTGTTAAGGGGATAAGGTCAGATGTTTCGAATGTTGTCCACGGTGATGA
genomic: ATTTGGTCAAGCTGCAGTCCTCACTTTCAGAAGTCAATCAgtaagttaat ... gtctttttagGATTGTTAAGGGGATAAGGTCAGATGTTTCGAATGTTGTCCACGGTGATGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACGTGGATGCAGGTGCAGCAAAGGAACTGATGGCATATTTGGTCAAGCTGCAGTCCTCACTTTCAGAAGTCAATCAgtaagttaattttagtacactaacattattttaattcttggttataaagatatgcatccggtgagagttgtcctatactagctagtaccttggtatcttg

- - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT