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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ataccattttagattagtaataaatttgatgcgtatgtttgagctatatatatcaacaaggttatccattagtaaatttacttaattattgacaatgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATGCCTATGATTGACCAG

Basic information

species Glycine max
transcript GLYMA07G05390.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G05390.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os05g36260.1 (Oryza sativa), 3'ss of exon 3
-ataccattttagattagtaataaatttgatgcgtatgtttgagctatatatatcaacaaggttatccattagtaaatttacttaattattgacaatgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATGCCTATGATTGACCAG
   | ||   | ||   |   | |||||  |   |    |     | | |  ||   | |  || || |      ||  |  |   || ||  |||   |||| ||||||||||||||||  ||||| |||||||||||||||||  | ||||||||||||||||||
gtgaacagaattgac--gcccttaattttctatatg-actcacattttctgcatttgctaatttgtctaacgtacaaccttgt--gttgttcgcaac-cagGAACCAGTTCTTCCTGGTTCATTCCTCCGAGCCAGGGCCATTGGTCTCATGCCTATGATTGACCAG

upper sequence: GLYMA07G05390.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G01050.1 (Arabidopsis thaliana), 3'ss of exon 5
ataccattttagattagtaataaatttgatgcgtatgtttgagctatatatatcaacaaggttatccattagtaaatttacttaattattgacaatgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATGCCTATGATTGACCAG
      | |||   |     |   | | ||   |||   |   |||| |  | |||     || |  |||   |||| ||  | |||||      ||||||| || || ||||| |||||||| ||||| ||||| ||||||||||| ||||||||||||||||||
-----gtattactctttctttctttctcatat-tatccctatactatttgcaccaatt---ttttgtattt-caaatatatattattatctttg-tgtagGAACCTGTGCTTCCGGGTTGTTTTCTGCGTGCCAGAGCCATTGGATTAATGCCTATGATTGACCAG

upper sequence: GLYMA07G05390.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G46860.1 (Arabidopsis thaliana), 3'ss of exon 4
ataccattttagattagtaataaatttgatgcgtatgtttgagctatatatatcaacaaggttatccattagtaaatttacttaattattgaca-atgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATGCCTATGATTGACCAG
                ||||     ||    |     |   |  |||    |||||  |    ||    | ||||  | | |||  |  |||    ||||||| ||||| ||||| || |||||||| || || || ||||||||||| ||||| |||||||| |||
----------------gtaactgtgttttcacaaccatcaaaattat---catcaaataccacattgtgttgtaacctgagttagcttctgattcgtgtagGAACCAGTGCTTCCCGGATGTTTCCTCCGTGCTAGAGCCATTGGATTAATGCCCATGATTGATCAG

upper sequence: GLYMA07G05390.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv02s0025g02980.t01 (Vitis vinifera), 3'ss of exon 4
--------------ataccattttagattagtaataa-atttgatgcgtatgtttgagctatata--tatcaacaaggttatccattagtaaatttacttaatta--ttgacaatgt-----agGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATGCCTATGATTGACCAG
              ||| |||||   || | |||||| |  |  |   | | ||  | ||| | |  | |   | || |        |||   |||||    | |   ||||| | |     |||| |||||| ||||||| ||||| || |||||||||||||||||  ||||||| |||||||| |||
gtagttcaaactagatagcattt--aatcaataataagagctcgtctttgttttgcaactaaacagttgtgggcgag-tagattggaagtgtttttacaagctcaaactgacatttttgaacagGAACCAGTTGTTCCTGGCTGTTTTCTTCGAGCCAGGGCCATTGGGCTGATGCCCATGATTGATCAG

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|254315135|gb|GR830128.1|GR830128
EST:     GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAG                         A
genomic: GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaattttt ... gacaatgtag-
EST: gi|254315135|gb|GR830128.1|GR830128
EST:     GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAG                         A
genomic: GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaattttt ... gacaatgtag-
EST: gi|254344222|gb|GR851025.1|GR851025
EST:     GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAG                         GAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
genomic: GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaattttt ... gacaatgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
EST: gi|17400209|gb|BM176991.1|BM176991
EST:     GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAG                         GAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
genomic: GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaattttt ... gacaatgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
EST: gi|254315134|gb|GR830127.1|GR830127
EST:     GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAG                         GAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
genomic: GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaattttt ... gacaatgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
EST: gi|254344223|gb|GR851026.1|GR851026
EST:     GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAG                         GAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
genomic: GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaattttt ... gacaatgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
EST: gi|18040990|gb|BM309284.1|BM309284
EST:     GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAG                         GAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
genomic: GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaattttt ... gacaatgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
EST: gi|209698574|gb|BW652427.1|BW652427
EST:     GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAG                         GAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
genomic: GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaattttt ... gacaatgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
EST: gi|151399288|gb|EV269159.1|EV269159
EST:     GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAG                         GAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
genomic: GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaattttt ... gacaatgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatatatcaacaaggttatccattagtaaatttacttaattattgacaatgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATGCCTATGATTGACCAG
                                         tattgac  putative branch site (score: 2)
                ttatccattagtaaat  TA-rich tract