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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCACACACAAGGTCATATAAGTTACTATGTTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgactgctcaatctttttaacatcacaaagaagtagttatttggaaaacatgtaaagctgtaacaagtgcttgtatttttcgctctcattctttctctctgtgaaaactttcgtgtatatgaattttgaagagatccttttaaatctctggatttattgtgttattgtttctctacag

Basic information

species Glycine max
transcript GLYMA14G36610.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G36610.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv13s0067g00180.t01 (Vitis vinifera), 5'ss of exon 4
CCACACACAAGGTCATATAAGTTACTATGTTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgactgctcaatctttttaacatcacaaagaagtagttatttggaaaacatgtaaagctgtaacaagtgcttgtatttttcgctctcattctttctctctgtgaaaactttcgtgtatatgaattttgaagagatccttttaaatctctggatttattgtgttattgtttctctacag
 || |||   ||||| |||||||||||||| || ||||||||||| ||    ||||||||||| |||||||| |||||||||||  ||       ||||  |    ||  |      | ||| | ||          | ||| |  | ||      ||   | |      | || | |  |||| |     |                                                                       
TCATACAAGGGGTCACATAAGTTACTATGTGACAGGCAAAGAGGAAGATGTCCCGGCTGTTTTCACTGGAGACACATTGgtaagg-gagaaaaagatctcatagtgatttcc-----gcagtcaatt------ttcatcaagataaaccagagaactgagctatgtaagat-atacatggtctcggaaggga-----------------------------------------------------------------------
















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|209714894|gb|BW682059.1|BW682059
EST:     TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTG                         TTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
genomic: TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgac ... ttctctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
EST: gi|254347199|gb|GR856869.1|GR856869
EST:     TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTG                         TTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
genomic: TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgac ... ttctctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
EST: gi|10847409|gb|BF070096.1|BF070096
EST:     TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTG                         TTTATTGCTAGTTGTGGGAAATGTTTTGAAGGAACTGCAGAACAGATGTAT
genomic: TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgac ... ttctctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
EST: gi|151407616|gb|EV277431.1|EV277431
EST:     TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTG                         TTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
genomic: TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgac ... ttctctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
EST: gi|27426743|gb|CA938263.1|CA938263
EST:     TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTG                         TTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
genomic: TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgac ... ttctctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
EST: gi|151406931|gb|EV276746.1|EV276746
EST:     TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTG                         TTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
genomic: TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgac ... ttctctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
EST: gi|58017863|gb|CX704605.1|CX704605
EST:     TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTG                         TTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
genomic: TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgac ... ttctctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
EST: gi|192331092|gb|FK020312.1|FK020312
EST:     TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTG                         TTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
genomic: TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgac ... ttctctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
EST: gi|254333893|gb|GR848811.1|GR848811
EST:     TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTG                         TTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
genomic: TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgac ... ttctctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
EST: gi|298171750|gb|HO021342.1|HO021342
EST:     TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTG                         TTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
genomic: TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgac ... ttctctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
EST: gi|58017298|gb|CX704040.1|CX704040
EST:     TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTG                         TTTATTGCTAGTTGTGGGAAATTTTTT-AAGGAACTGCAGAACAGATGTAT
genomic: TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgac ... ttctctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
EST: gi|209706270|gb|BW676285.1|BW676285
EST:     TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTG                         TTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
genomic: TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgac ... ttctctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
EST: gi|254333892|gb|GR848810.1|GR848810
EST:     TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTG                         TTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
genomic: TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgac ... ttctctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
EST: gi|151411907|gb|EV281718.1|EV281718
EST:     TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTG                         TTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
genomic: TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgac ... ttctctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
EST: gi|58021215|gb|CX707957.1|CX707957
EST:     TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTG                         TTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
genomic: TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgac ... ttctctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
EST: gi|298171455|gb|HO016487.1|HO016487
EST:     TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTG                         TTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
genomic: TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgac ... ttctctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
EST: gi|151402755|gb|EV272568.1|EV272568
EST:     TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTG                         TTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
genomic: TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgac ... ttctctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
EST: gi|298196527|gb|HO041270.1|HO041270
EST:     TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTG                         TTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
genomic: TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgac ... ttctctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
EST: gi|151406677|gb|EV276492.1|EV276492
EST:     TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTG                         TTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
genomic: TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgac ... ttctctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
EST: gi|254334579|gb|GR844364.1|GR844364
EST:     TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTG                         TTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
genomic: TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgac ... ttctctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
EST: gi|254335322|gb|GR846819.1|GR846819
EST:     TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTG                         TTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
genomic: TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgac ... ttctctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
EST: gi|254335321|gb|GR846818.1|GR846818
EST:     TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTG                         TTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
genomic: TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgac ... ttctctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
EST: gi|254340015|gb|GR858140.1|GR858140
EST:     TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTG                         TTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT
genomic: TTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgac ... ttctctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCACACACAAGGTCATATAAGTTACTATGTTACTGGCAAAGAGGATGAGCAACCGGCTGTTTTTACTGGAGATACATTGgtaagatgactgctcaatctttttaacatcacaaagaagtagttatttggaaaacatgtaaagctgtaacaagtgcttgtatttttcgctctcattctttctctctgtgaaaactttcgtgtatatgaattttgaagagatccttttaaatctctggatttattgtgttattgtttctctacag

- - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT