Skip to another splice site:
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 5'  3'   		2  
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAAGAAAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaaggacaatgatttctcatattattggtttggtttcaattgtgaacactattgacttgtttgagtttaatgtttcag

Basic information

species Glycine max
transcript GLYMA06G15890.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G15890.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv04s0044g01310.t01 (Vitis vinifera), 5'ss of exon 2
TGAAGAAAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaaggac--aatgatttct-----------catattattggtttggtttcaattgtgaaca--------ctattgacttgtttgagtttaatgtttcag-----------------------------------------
|||||||||| || || |||||||||||||||||||| ||||| |||||  ||||||||||  |     |   || |||           ||| || || ||||  | |||     |||          || | || || | |   |  ||  | || |                                         
TGAAGAAAGGCCAAATAGTGAGGGTGGACAAGGAGAAGTATCTTAATAGTATCAATgtaagctgacttgatcaatgtctagaagaaatggcatgttgtttgtttaatctcaggaaggaaggggaagtgcctttggatttatgtttatacaaaatatctgattcattcattcatttgaaaatccttggcttcaaatttcag

upper sequence: GLYMA06G15890.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S230_32V6.1 (Physcomitrella patens), 5'ss of exon 3
TGAAGAAAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaaggacaatgatttctcatattattggtttggtttcaattgtgaacactattgacttgttt-gagtttaatgtttcag------------------------------------------------------------------------------------------------------------
|||||||||| ||||||||||| || |||||||| |||||||| || || ||  | ||||      |  |   ||| || | |   | || |||  ||    |    |   || |  ||    ||    | ||| |                                                                                                               
TGAAGAAAGGACAGATTGTGAGAGTTGACAAGGAAAAATATCTGAACAGTGTAGAGgtaat---ttccgtttcttcacaaacttaagcttgggtgacatgcataccgatcttttatatgacaagaagccattgtatgttgccttgaattccgctccaaagacatagttatctagtcatttgcagagatgtgcttctttctgcaagcttagacacacagatgttctgaatgaggaaatcgcgatgcag
















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|209708698|gb|BW678879.1|BW678879
EST:     AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAAT                         TATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
genomic: AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaagga ... aatgtttcagTATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
EST: gi|192316855|gb|FK006082.1|FK006082
EST:     AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAAT                         TATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
genomic: AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaagga ... aatgtttcagTATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
EST: gi|151403156|gb|EV272966.1|EV272966
EST:     AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAAT                         TATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
genomic: AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaagga ... aatgtttcagTATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
EST: gi|213600560|gb|DB960108.1|DB960108
EST:     AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAAT                         TATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
genomic: AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaagga ... aatgtttcagTATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
EST: gi|192317603|gb|FK008999.1|FK008999
EST:     AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAAT                         TATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
genomic: AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaagga ... aatgtttcagTATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
EST: gi|209706472|gb|BW670831.1|BW670831
EST:     AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAAT                         TATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
genomic: AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaagga ... aatgtttcagTATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
EST: gi|19345850|gb|BM890730.1|BM890730
EST:     AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAAT                         TATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
genomic: AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaagga ... aatgtttcagTATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
EST: gi|298178035|gb|HO023884.1|HO023884
EST:     AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAAT                         TATCTTTCTGTTGGGCACCCACCTTATCACAAAGGATTAGATTACATTTAT
genomic: AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaagga ... aatgtttcagTATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
EST: gi|192317604|gb|FK009000.1|FK009000
EST:     AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAAT                         TATCTTTTTGTTGGGCACCCCCCTTATTACAAAGGATTAGATTACATTTAT
genomic: AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaagga ... aatgtttcagTATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
EST: gi|213603478|gb|DB966629.1|DB966629
EST:     AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAAT                         TATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
genomic: AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaagga ... aatgtttcagTATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
EST: gi|31306990|gb|CD392193.1|CD392193
EST:     AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAAT                         TATCTTTCTGTTGGGCACCCACCTTATTACCAAGGATTAGATTACATTTAT
genomic: AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaagga ... aatgtttcagTATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
EST: gi|209712066|gb|BW674213.1|BW674213
EST:     AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAAT                         TATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
genomic: AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaagga ... aatgtttcagTATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
EST: gi|209708699|gb|BW678880.1|BW678880
EST:     AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAAT                         TATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
genomic: AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaagga ... aatgtttcagTATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
EST: gi|120530396|gb|EH258529.1|EH258529
EST:     AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAAT                         TATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
genomic: AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaagga ... aatgtttcagTATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
EST: gi|151401315|gb|EV271129.1|EV271129
EST:     AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAAT                         TATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
genomic: AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaagga ... aatgtttcagTATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
EST: gi|298177637|gb|HO027304.1|HO027304
EST:     AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAAT                         TATCTTTCTGTTGGGCACCCACCTTATCACAAAGGATTAGATTACATTTAT
genomic: AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaagga ... aatgtttcagTATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
EST: gi|151403653|gb|EV273463.1|EV273463
EST:     AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAAT                         TATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
genomic: AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaagga ... aatgtttcagTATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
EST: gi|209711472|gb|BW665224.1|BW665224
EST:     AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAAT                         TATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
genomic: AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaagga ... aatgtttcagTATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
EST: gi|213617933|gb|DB957386.1|DB957386
EST:     AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAAT                         TATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
genomic: AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaagga ... aatgtttcagTATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
EST: gi|213611375|gb|DB983967.1|DB983967
EST:     AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAAT                         TATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
genomic: AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaagga ... aatgtttcagTATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
EST: gi|151405413|gb|EV275227.1|EV275227
EST:     ATAGCGTCAAT                         TATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
genomic: ATAGCGTCAATgtaagaagga ... aatgtttcagTATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
EST: gi|192319047|gb|FK009071.1|FK009071
EST:     AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAAT                         TATCTTCCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
genomic: AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaagga ... aatgtttcagTATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
EST: gi|209711473|gb|BW665225.1|BW665225
EST:     AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAAT                         TATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
genomic: AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaagga ... aatgtttcagTATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
EST: gi|209706473|gb|BW670832.1|BW670832
EST:     AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAAT                         TATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
genomic: AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaagga ... aatgtttcagTATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
EST: gi|151404681|gb|EV274495.1|EV274495
EST:     AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAAT                         TATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT
genomic: AAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaagga ... aatgtttcagTATCTTTCTGTTGGGCACCCACCTTATTACAAAGGATTAGATTACATTTAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGAAGAAAGGTCAGATTGTGAGGGTGGACAAGGAGAAATATCTCAATAGCGTCAATgtaagaaggacaatgatttctcatattattggtttggtttcaattgtgaacactattgacttgtttgagtttaatgtttcag

- - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - -  GGAGAA