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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAGACATTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtctttttctcaattatttctggcttttgcataatgtatacatttatgtgtttttcctaaaataaacgacaacaatacaactacaattttggccat...

Basic information

species Glycine max
transcript GLYMA09G25470.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G25470.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv16s0050g00390.t01 (Vitis vinifera), 5'ss of exon 3
AAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAGACATTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtctttttctcaattatttctggcttttgcataatgtatacatttatgtgtttttcctaa-aataaacgacaacaatacaactacaattttggccat-----
 |||||||||||||| |||||||||||||||||| | ||||| |||||||||||||| || ||||||||||| || || |||   || || || || |||||| |       |  ||||    |     |||   |  | |  |||   || | ||       | ||  || || |  ||  || || || ||| | | |      
GAAGATATCACCAATCGAAGTGGATGCTGTCCTTTTATCACATCCAGACATTGCTCAAGCGGTTGCTTTTGGGGTTCCAGATGACAAATACGGCGAAGAGgtaagaac----cgtaatt--ccccattctttaattgctatcaacaccaatttattagaagggataaccaatgagatgaaatcatctccactttggacaaagcatg
















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|151402671|gb|EV272484.1|EV272484
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|9901943|gb|BE610911.1|BE610911
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|57574486|gb|CX547461.1|CX547461
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|4396832|gb|AI495829.1|AI495829
EST:     GCTCAAGGCAGTTGCTTTTGGAGTGCNTGAT-CAAAGGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGAT-AGACATTGATGATGCAGAG
genomic: GCTC-AGGCAGTTGCTTTTGGAGTGCCTGATCCAAA-GTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|151404838|gb|EV274652.1|EV274652
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|58019816|gb|CX706558.1|CX706558
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|58022445|gb|CX709186.1|CX709186
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|16348274|gb|BI973869.1|BI973869
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|8285727|gb|BE023286.1|BE023286
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCATGA
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCA-GA
EST: gi|58024859|gb|CX711600.1|CX711600
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|58014173|gb|CX700915.1|CX700915
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|58022144|gb|CX708885.1|CX708885
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|14205719|gb|BG839397.1|BG839397
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|10848061|gb|BF070618.1|BF070618
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|14011994|gb|BG726916.1|BG726916
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|58021725|gb|CX708466.1|CX708466
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|151400171|gb|EV269985.1|EV269985
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|58024760|gb|CX711501.1|CX711501
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|6134058|gb|AW132387.1|AW132387
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|15287484|gb|BI471375.1|BI471375
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|14011286|gb|BG726217.1|BG726217
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCACACATTGATGATGCACAG
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|209708570|gb|BW668183.1|BW668183
EST:     TGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
genomic: TGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|58021085|gb|CX707827.1|CX707827
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|163921451|gb|EH039795.1|EH039795
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|58022820|gb|CX709561.1|CX709561
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|15813760|gb|BI786035.1|BI786035
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|58015129|gb|CX701871.1|CX701871
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
EST: gi|4303619|gb|AI443502.1|AI443502
EST:     TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAG                         ATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG
genomic: TTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtcttt ... cttttaatagATATACTGTGCTGTAATCCCAAGAGAAGGATCAGACATTGATGATGCAGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAGACATTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGAGGAGgtatgtctttttctcaattatttctggcttttgcataatgtatacatttatgtgtttttcctaaaataaacgacaacaatacaactacaattttggccat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaataaa