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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACTACTCTTGTTTCCCTTCAAGATATAATGCTTGATAAAGTTCTTGATGAATCTGGCAGGAAGATTCTCTGCTCCGAGTTCTCCAAGATAATGCAACAGgtacttgaaagcaactacactttttgtttgtttgggcgttggtccatggagttagtactggagattatgcatgcatagaattgagtaacatctatataaa...

Basic information

species Glycine max
transcript GLYMA09G02750.1
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G02750.1 (Glycine max), 5'ss of exon 17
lower sequence: Vv10s0003g04670.t01 (Vitis vinifera), 5'ss of exon 17
AACTACTCTTGTTTCCCTTCAAGATATAATGCTTGATAAAGTTCTTGATGAATCTGGCAGGAAGATTCTCTGCTCCGAGTTCTCCAAGATAATGCAACAGgtacttgaaagcaactacactttttgtttgtttgggcgttggtccatggagtta-gtactgga--gattatgcat----gcatagaattgagtaacatctatataaa----------------------
||| ||||| ||  ||||||||||||||||||| || ||  ||||||||||| |||| ||||||||||||||||| |||||||| ||||| |||||||||||| ||  | |   |  ||  |||||||| | |   | | |||  |   | | |  |||  |    ||| || |        |  || ||  | |||  ||| | ||                      
AACCACTCTGGTGGCCCTTCAAGATATAATGCTAGACAAGATTCTTGATGAAGCTGGGAGGAAGATTCTCTGCTCTGAGTTCTCTAAGATCATGCAACAGgtaatt--atgatgcatcatgttttgttt-tctaatcatgggttaacaaaatcacatacaagcccaattttgaaattcgatgtgaaactgtattacaa-tatctcaagtctttcgtttttcaattgcag
















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|12689908|gb|BG156244.1|BG156244
EST:     AATCTGGCAGGAAGATTCTCTGCTCCGAGTTCTCCAAGATAATGCAACAG                         GGTTTTGCATCTCTCCCTGCAGGAATATGTGTATCTAGT
genomic: AATCTGGCAGGAAGATTCTCTGCTCCGAGTTCTCCAAGATAATGCAACAGgtacttgaaa ... ttcttttcagGGTTTTGCATCTCTCCCTGCAGGAATATGTGTATCTAGT
EST: gi|209713395|gb|BW681463.1|BW681463
EST:     AATCTGGCAGGAAGATTCTCTGCTCCGAGTTCTCCAAGATAATGCAACAG                         GGTTTTGCATCTCTCCCTGCAGGAATATGTGTATCTAGTATGAATCGGCCA
genomic: AATCTGGCAGGAAGATTCTCTGCTCCGAGTTCTCCAAGATAATGCAACAGgtacttgaaa ... ttcttttcagGGTTTTGCATCTCTCCCTGCAGGAATATGTGTATCTAGTATGAATCGGCCA
EST: gi|15203072|gb|BI425840.1|BI425840
EST:     AATCTGGCAGGAAGATTCTCTGCTCCGAGTTCTCCAAGATAATGCAACAG                         GGTTTTGCATCTCTCCCTGCAGGAATATGTGTATCTAGTATGAATCGGCCA
genomic: AATCTGGCAGGAAGATTCTCTGCTCCGAGTTCTCCAAGATAATGCAACAGgtacttgaaa ... ttcttttcagGGTTTTGCATCTCTCCCTGCAGGAATATGTGTATCTAGTATGAATCGGCCA
EST: gi|17963391|gb|BM270141.1|BM270141
EST:     AATCTGGCAGGAAGATTCTCTGCTCCGAGTTCTCCAAGATAATGCAACAG                         GGTTTTGCATCTCTCCCTGCAGGAATATGTGTATCTAGTATGAATCGGCCA
genomic: AATCTGGCAGGAAGATTCTCTGCTCCGAGTTCTCCAAGATAATGCAACAGgtacttgaaa ... ttcttttcagGGTTTTGCATCTCTCCCTGCAGGAATATGTGTATCTAGTATGAATCGGCCA
EST: gi|11411927|gb|BF423938.1|BF423938
EST:     AATCTGGCAGGAAGATTCTCTGCTCCGAGTTCTCCAAGATAATGCAACAG                         GGTTTTGCATCTCTCCCTGCATGAATATGTGTATCTAGT
genomic: AATCTGGCAGGAAGATTCTCTGCTCCGAGTTCTCCAAGATAATGCAACAGgtacttgaaa ... ttcttttcagGGTTTTGCATCTCTCCCTGCAGGAATATGTGTATCTAGT
EST: gi|6848877|gb|AW351167.1|AW351167
EST:     AATCTGGCAGGAAGATTCTCTGCTCCGAGTTCTCCAAGATAATGCAACAG                         GGTTTTGCATCTCTCCCTGCAGGAATATGTGTATCTAGTATGAATCGGCCA
genomic: AATCTGGCAGGAAGATTCTCTGCTCCGAGTTCTCCAAGATAATGCAACAGgtacttgaaa ... ttcttttcagGGTTTTGCATCTCTCCCTGCAGGAATATGTGTATCTAGTATGAATCGGCCA
EST: gi|192305204|gb|FG993956.1|FG993956
EST:     AATCTGGCAGGAAGATTTTTTGCTCCGAGTTCTCCAAGATAATGCAACAG                         GGTTTTGCATCTCTCCCTGCAGGAATATGTGTATTTAGTATGAATCGGCCA
genomic: AATCTGGCAGGAAGATTCTCTGCTCCGAGTTCTCCAAGATAATGCAACAGgtacttgaaa ... ttcttttcagGGTTTTGCATCTCTCCCTGCAGGAATATGTGTATCTAGTATGAATCGGCCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACTACTCTTGTTTCCCTTCAAGATATAATGCTTGATAAAGTTCTTGATGAATCTGGCAGGAAGATTCTCTGCTCCGAGTTCTCCAAGATAATGCAACAGgtacttgaaagcaactacactttttgtttgtttgggcgttggtccatggagttagtactggagattatgcatgcatagaattgagtaacatctatataaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA