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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATTGGTGAAGTAAAGATTACTGACTTTGGTGTGAGTGCAATTATGGAAAGTACATCTGGTCAAGCAAATACTTTCATTGGAACCTACAACTATATGTCTgtgagtaatatgtacaagtatatttatcattttaccaccaaaatttaccagtgtttcctagaatatacagtaacaatcactgccaattttacag

Basic information

species Glycine max
transcript GLYMA13G16650.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G16650.2 (Glycine max), 5'ss of exon 5
lower sequence: Vv11s0016g01770.t01 (Vitis vinifera), 5'ss of exon 5
TATTGGTGAAGTAAAGATTACTGACTTTGGTGTGAGTGCAATTATGGAAAGTACATCTGGTCAAGCAAATACTTTCATTGGAACCTACAACTATATGTCTgtgagtaatatg--tacaagtat--atttatcatt----ttaccaccaaaatttaccagtgtttcctagaatatacagtaacaatcact--gccaattttacag-------------------------------------
 |  || ||||| ||||| || ||||||||||||||||||||  |   ||| || ||||| || |||||||||||  | || || |||||||||||||||||||||| |     | ||| | |  | ||| |||      |      |  || |||      |     |  || |     ||    | |  ||  ||||| | |                                     
CAGAGGAGAAGTGAAGATCACCGACTTTGGTGTGAGTGCAATACTTACAAGCACCTCTGGGCAGGCAAATACTTTTGTCGGCACGTACAACTATATGTCTgtgagtatttcagttgcaaatctggaattaacatgagagctgtgtttatgatgtactttgcctcatctggttaaatttctacccctattttgctcatttttctgaaacttacatttagttgtctgcgattgtcttctatag
















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|120492239|gb|EH220406.1|EH220406
EST:     GTACATCTGGTCAAGCAAATACTTTCATTGGAACCTACAACTATATGTCT                         CCAGAGAGAATCAATGGAAGCCAGCGAGGCTACAACTACAAAAGTGATATA
genomic: GTACATCTGGTCAAGCAAATACTTTCATTGGAACCTACAACTATATGTCTgtgagtaata ... aattttacagCCAGAGAGAATCAATGGAAGCCAGCGAGGCTACAACTACAAAAGTGATATA
EST: gi|254339551|gb|GR848268.1|GR848268
EST:     GTACATCTGGTCAAGCAAATACTTTCATTGGAACCTACAACTATATGTCT                         CCAGAGAGAATCAATGGAAGCCAGCGAGGCTACAACTACAAAAGTGATATA
genomic: GTACATCTGGTCAAGCAAATACTTTCATTGGAACCTACAACTATATGTCTgtgagtaata ... aattttacagCCAGAGAGAATCAATGGAAGCCAGCGAGGCTACAACTACAAAAGTGATATA
EST: gi|192319245|gb|FK006945.1|FK006945
EST:     GTACATCTGGTCAAGCAAATACTTTCATTGGAACCTACAACTATATGTCT                         CCAGAGAGAATCAATGGAAGCCAGCGAGGCTACAACTACAAAAGTGATATA
genomic: GTACATCTGGTCAAGCAAATACTTTCATTGGAACCTACAACTATATGTCTgtgagtaata ... aattttacagCCAGAGAGAATCAATGGAAGCCAGCGAGGCTACAACTACAAAAGTGATATA
EST: gi|10848164|gb|BF070707.1|BF070707
EST:     CAACTATATGTCT                         CCAGAGAGAATCAATGGAAGCCAGCGAGGCTACAACTACAAAAGTGATATA
genomic: CAACTATATGTCTgtgagtaata ... aattttacagCCAGAGAGAATCAATGGAAGCCAGCGAGGCTACAACTACAAAAGTGATATA
EST: gi|192314673|gb|FK006613.1|FK006613
EST:     GTACATCTGGTCAAGCAAATACTTTCATTGGAACCTACAACTATATGTCT                         CCAGAGAGAATCAATGGAAGCCAGCGAGGCTACAACTACAAAAGTGATATA
genomic: GTACATCTGGTCAAGCAAATACTTTCATTGGAACCTACAACTATATGTCTgtgagtaata ... aattttacagCCAGAGAGAATCAATGGAAGCCAGCGAGGCTACAACTACAAAAGTGATATA
EST: gi|21889079|gb|BQ742292.1|BQ742292
EST:     GTACATCTGGTCAAGCAAATACTTTCATTGGAACCTACAACTATATGTCT                         CCAGAGAGAATCA
genomic: GTACATCTGGTCAAGCAAATACTTTCATTGGAACCTACAACTATATGTCTgtgagtaata ... aattttacagCCAGAGAGAATCA
EST: gi|192319246|gb|FK006946.1|FK006946
EST:     GTACATCTGGTCAAGCAAATACTTTCATTGGAACCTACAACTATATGTCT                         CCAGAGAGAATCAATGGAAGCCAGCGAGGCTACAACTACAAAAGTGATATA
genomic: GTACATCTGGTCAAGCAAATACTTTCATTGGAACCTACAACTATATGTCTgtgagtaata ... aattttacagCCAGAGAGAATCAATGGAAGCCAGCGAGGCTACAACTACAAAAGTGATATA
EST: gi|254326660|gb|GR832812.1|GR832812
EST:     GTACATCTGGTCAAGCAAATACTTTCATTGGAACCTACAACTATATGTCT                         CCAGAGAGAATCAATGGAAGCCAGCGAGGCTACAACTACAAAAGTGATATA
genomic: GTACATCTGGTCAAGCAAATACTTTCATTGGAACCTACAACTATATGTCTgtgagtaata ... aattttacagCCAGAGAGAATCAATGGAAGCCAGCGAGGCTACAACTACAAAAGTGATATA
EST: gi|15814302|gb|BI786577.1|BI786577
EST:     GTACATCTGGTCAAGCAAATACTTTCATTGGAACCTACAACTATATGTCT                         CCAGAGAGAATCAATGGAAGCCAGCGAGGCTACAACTACAAAAGTGATATA
genomic: GTACATCTGGTCAAGCAAATACTTTCATTGGAACCTACAACTATATGTCTgtgagtaata ... aattttacagCCAGAGAGAATCAATGGAAGCCAGCGAGGCTACAACTACAAAAGTGATATA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TATTGGTGAAGTAAAGATTACTGACTTTGGTGTGAGTGCAATTATGGAAAGTACATCTGGTCAAGCAAATACTTTCATTGGAACCTACAACTATATGTCTgtgagtaatatgtacaagtatatttatcattttaccaccaaaatttaccagtgtttcctagaatatacagtaacaatcactgccaattttacag

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