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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattctttcttttcttaactattattcattagctgatgcagagctgatggaaatgtcttttaggagtttgtcttctaatcatataactatgtacagACAATTGACAGATTAATTGAAACTGGAGATAGTGAACAAATTTTCCAGAAGGCTATTCAGGAACAAGGACGAGGCCAG

Basic information

species Glycine max
transcript GLYMA16G27050.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G27050.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os06g07200.1 (Oryza sativa), 3'ss of exon 9
gtattctttcttttcttaactattattcattagctgatgcagagctgatggaaatgtcttttaggagtttgtcttctaatcatataactatgtacagACAATTGACAGATTAATTGAAACTGGAGATAGTGAACAAATTTTCCAGAAGGCTATTCAGGAACAAGGACGAGGCCAG
                |||  | |||  |||| ||       | ||| |   ||  |||       || |||    ||  | |      || | |||||||||||||   | || |||||||| || ||||| |||||||| ||||  ||||||||||||||||| || ||   |
---------------gtaagaagtat--attaacttcaaatcatctgttaacaa-atctgcatatggtgtgttgcttacacctggccaaattttcagACAATTGACAAGCTGATAGAAACTGGGGACAGTGAGCAAATTTTTCAGAGAGCTATTCAGGAACAAGGCCGTGGAAGG

upper sequence: GLYMA16G27050.1 (Glycine max), 3'ss of exon 9
lower sequence: AT3G03800.1 (Arabidopsis thaliana), 3'ss of exon 9
gtattctttcttttcttaactattattcattagctgatgcagagctgatggaaatgtcttttaggagtttgtcttctaatcatataactatgtacagACAATTGACAGATTAATTGAAACTGGAGATAGTGAACAAATTTTCCAGAAGGCTATTCAGGAACAAGGACGAGGCCAG
          || |  |||||   ||   |||  ||||  | | |  || ||| |   |  |    |||  | |||   |           ||  ||||| |||| ||||| |||||||||||||| ||||| |||||||||||||| || ||   ||| ||||||||||| |||
---------gttcttataactccgat---ttaattgattaataccctattgaattagttcatgattgttaattttcgggt-----------gtgtagacagTTGATAGATTGATTGAAACTGGAGACAGTGAGCAAATTTTCCAGAAAGCAATCAGGGAGCAAGGACGAGGACAG

upper sequence: GLYMA16G27050.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv08s0032g00440.t01 (Vitis vinifera), 3'ss of exon 9
gtattctttcttttcttaactattattcattagctgatgcagagctga--tggaaatgtcttttaggagtttgtcttctaatcatataactatgtacagACAATTGACAGATTAATTGAAACTGGAGATAGTGAACAAATTTTCCAGAAGGCTATTCAGGAACAAGGACGAGGCCAG
             |   || ||||   | || |   |||   |  | |  |  | ||||  |||     ||  |  ||||||  |  ||   | ||||||||||||||||||||||||| |||||||| |||||||||||||||||||| || ||||||||||||||||||||||||
------------gtgaaaattattgcacctttgac-atgtgaaattaacttttacatgtgattt-----ttcatgatctaattcttcaatattttacagACAATTGACAGATTAATTGAGACTGGAGACAGTGAACAAATTTTCCAGAAAGCAATTCAGGAACAAGGACGAGGCCAG

upper sequence: GLYMA16G27050.1 (Glycine max), 3'ss of exon 9
lower sequence: EFJ12216 (Selaginella moellendorffii), 3'ss of exon 6
gtattctttcttttcttaactattattcattagctgatgcagag---ctgatggaaatgtcttttaggagtttgtcttctaatcatataactatgtacagACAATTGACAGATTAATTGAAACTGGAGATAGTGAACAAATTTTCCAGAAGGCTATTCAGGAACAAGGACGAGGCCAG
                             | || || | | | |   | |||    | |          |||||  | |   || | |      ||||||||  ||||||  || || ||||||||||| |||||   |||||| || |||||| ||||||||||||| |||||||| 
----------------------------gtgagttggttcggggactccgattccgaagctaacctcacgtttgcttac--gtcttttgg----gtacagACTGTTGACAAGTTGATCGAAACTGGAGACAGTGAGACAATTTTTCAAAAGGCTGTTCAGGAACAAGGCCGAGGCCAA

upper sequence: GLYMA16G27050.1 (Glycine max), 3'ss of exon 9
lower sequence: EFJ08209 (Selaginella moellendorffii), 3'ss of exon 6
gtattctttcttttcttaactattattcattagctgatgcagagctgatggaaatgtcttttaggagtttgtcttctaatcatataact-atgtacagACAATTGACAGATTAATTGAAACTGGAGATAGTGAACAAATTTTCCAGAAGGCTATTCAGGAACAAGGACGAGGCCAG
                             | || || | | | |     |      ||      || | |  | | |  | |  |   |   ||||||||  ||||||  || || ||||||||||| |||||   |||||| || |||||| ||||||||||||| |||||||| 
----------------------------gtgagttggttctgggactccgat----tccgaagtgaatctcacgtttggttacttcttttgggtacagACTGTTGACAAGTTGATCGAAACTGGAGACAGTGAGACAATTTTTCAAAAGGCTGTTCAGGAACAAGGCCGAGGCCAA

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|254315172|gb|GR830165.1|GR830165
EST:     TTACGGGCACAAGAGCTGATGAGGAG                         ACAATTGACAGATTAATTGAAACTGGAGATAGTGAACAAATTTTCCAGAAG
genomic: TTACGGGCACAAGAGCTGATGAGGAGgtattctttc ... ctatgtacagACAATTGACAGATTAATTGAAACTGGAGATAGTGAACAAATTTTCCAGAAG
EST: gi|192324538|gb|FK016789.1|FK016789
EST:     TTACGGGCACAAGAGCTGATGAGGAG                         ACAATTGACAGATTAATTGAAACTGGGAGATAGTGAACAAATTTTTCCAGA
genomic: TTACGGGCACAAGAGCTGATGAGGAGgtattctttc ... ctatgtacagACAATTGACAGATTAATTGAAACTGG-AGATAGTGAACAAATTTT-CCAGA
EST: gi|192294341|gb|FG987270.1|FG987270
EST:     TTACGGGCACAAGAGCTGATGAGGAG                         ACAATTGACAGATTAATTGAAACTGGGAGATAGTGAACAAATTTTCCA
genomic: TTACGGGCACAAGAGCTGATGAGGAGgtattctttc ... ctatgtacagACAATTGACAGATTAATTGAAACTGG-AGATAGTGAACAAATTTTCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agctgatggaaatgtcttttaggagtttgtcttctaatcatataactatgtacagACAATTGACAGATTAATTGAAACTGGAGATAGTGAACAAATTTTCCAGAAGGCTATTCAGGAACAAGGACGAGGCCAG
                                  taatcatataactat  TA-rich tract