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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCACTGCTCTGTTTCACCGAGTTTGGGCGTTTAGATCAGAACCAAATCGTGTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggttcaatgaatcgcaaacagcaacattttctatttgtggttttttcttcttcattcctttgtgtatgctaattgaacatttgaatggcgttaatgtgtag

Basic information

species Glycine max
transcript GLYMA16G33230.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G33230.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv11s0016g01380.t01 (Vitis vinifera), 5'ss of exon 1
TCACTGCTCTGTTTCACCGAGTTTGGGCGTTTAGATCAGAACCAAATCGTGTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggttcaatgaatcgcaaacagcaacattttctatttgtggttttttcttct--tcattcctttgtgtatgctaa----ttgaacatttgaatggcgttaatgtgtag
                  | |||||       | |    ||||  | |      |||   |   ||||||||||| ||||||||||||||||||||||||||| |           |||  |         ||||||  |||||  | |   || |   ||      || ||| || |||    | |   | ||   | |  ||    |  ||
--------------ATTAGGGTTTGCAAAAGCATAGAGAAACCCGAGCTCAGA-TCTCAAACCTGCAAACATGGCGACTCAAATGAGCAAGAAGAGAAAGgtctg-----------atcatatgttcttttattttcc-tttgttttctgagctaccaatcggaaagttatgtttgttaaagtttcggtaacttattttgttttctcttacag
















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|298198666|gb|HO042029.1|HO042029
EST:     GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAG                         TTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
genomic: GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
EST: gi|7588311|gb|AW704109.1|AW704109
EST:     GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAG                         TTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
genomic: GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
EST: gi|6724618|gb|AW309073.1|AW309073
EST:     GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAG                         TTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
genomic: GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
EST: gi|4306646|gb|AI443934.1|AI443934
EST:     GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAG                         TTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
genomic: GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
EST: gi|298199176|gb|HO042539.1|HO042539
EST:     GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAG                         TTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
genomic: GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
EST: gi|151396319|gb|EV266196.1|EV266196
EST:     TCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAG                         TTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
genomic: TCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
EST: gi|15200735|gb|BI424503.1|BI424503
EST:     GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAG                         TTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
genomic: GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
EST: gi|298165905|gb|HO008876.1|HO008876
EST:     GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAG                         TTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
genomic: GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
EST: gi|192303929|gb|FG995243.1|FG995243
EST:     GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAG                         TTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
genomic: GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
EST: gi|4296474|gb|AI442480.1|AI442480
EST:     GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAG                         TTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
genomic: GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
EST: gi|298197972|gb|HO039511.1|HO039511
EST:     GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGGGCAAGAAGAGAAAG                         TTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
genomic: GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
EST: gi|17021161|gb|BM092195.1|BM092195
EST:     GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAG                         TTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
genomic: GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
EST: gi|9259255|gb|BE347463.1|BE347463
EST:     GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAG                         TTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
genomic: GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
EST: gi|298167459|gb|HO012722.1|HO012722
EST:     GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAG                         TTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
genomic: GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
EST: gi|13240303|gb|BG359612.1|BG359612
EST:     GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAG                         TTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
genomic: GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
EST: gi|298194508|gb|HO042980.1|HO042980
EST:     GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAG                         TTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
genomic: GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
EST: gi|192305016|gb|FG996134.1|FG996134
EST:     GGCAACTCAAATGAGCAAGAAGAGAAAG                         TTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
genomic: GGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
EST: gi|13563313|gb|BG551533.1|BG551533
EST:     GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAG                         TTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
genomic: GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
EST: gi|7030190|gb|AW459973.1|AW459973
EST:     GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAG                         TTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
genomic: GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
EST: gi|58025435|gb|CX712176.1|CX712176
EST:     GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAG                         TTTG-TGCGGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACG
genomic: GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGC-GGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACG
EST: gi|298174790|gb|HO017899.1|HO017899
EST:     GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAG                         TTTGTTGCGGACGGAGTGTTCTTTGCTGAACTGAACGAGGTTCTGACACGT
genomic: GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
EST: gi|298197705|gb|HO045184.1|HO045184
EST:     GTTCTCTTCCATTGGCAAACATAGCAACTCAAATGAGCAAGAAGAGAAAG                         TTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
genomic: GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
EST: gi|192295865|gb|FG992646.1|FG992646
EST:     GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAG                         TTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
genomic: GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
EST: gi|298196144|gb|HO044535.1|HO044535
EST:     GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAG                         TTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
genomic: GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
EST: gi|7146435|gb|AW508357.1|AW508357
EST:     GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAG                         TTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
genomic: GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
EST: gi|15337837|gb|BI498493.1|BI498493
EST:     GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAG                         TTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT
genomic: GTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggtt ... taatgtgtagTTTGTTGCGGACGGAGTGTTCTTTGCCGAACTGAACGAGGTTCTGACACGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCACTGCTCTGTTTCACCGAGTTTGGGCGTTTAGATCAGAACCAAATCGTGTTCTCTTCCATTGGCAAACATGGCAACTCAAATGAGCAAGAAGAGAAAGgtcagtggttcaatgaatcgcaaacagcaacattttctatttgtggttttttcttcttcattcctttgtgtatgctaattgaacatttgaatggcgttaatgtgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA