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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgaaaaccggagatgtctttcttaccttgggtatattgtagtagtgctaagtttagttgctgattctttcacaatttaccccaatccttaagcttcatatacatttgttgttggtaaggtgctcataaaatcatagctgatatatctgacatataacatactcagAATGTCTTGGGGAAATGGAGCTCAAAACTATTTGGAATTGCTTTGCTTGCATCGGGTCAAAGTTCTACTATTACAGGAACCTACGCAGGACAGTATGTCA

Basic information

species Glycine max
transcript GLYMA15G00590.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G00590.1 (Glycine max), 3'ss of exon 9
lower sequence: AT1G15960.1 (Arabidopsis thaliana), 3'ss of exon 9
gtatgtgaaaaccggagatgtctttcttaccttgggtatattgtagtagtgctaagtttagttgctgattctttcacaatttaccccaatccttaagcttcatatacatttgttgttggtaaggtgctcataaaatcatagctgatatatctgacatataacatactcagAATGTCTTGGGGAAATGGAGCTCAAAACTATTTGGAATTGCTTTGCTTGCATCGGGTCAAAGTTCTACTATTACAGGAACCTACGCAGGACAGTATGTCA
                                                         | | |   ||| || |  |   ||| |  ||||   |    | |||| || | |    ||  ||  |     |||     |||  |  | |   || |  |         ||||| ||  |||| |||||||||||||| ||||||| |||||| |||||||| || ||||| ||||| || || || ||||| || || ||||| || || |
--------------------------------------------------------gtaaatccatgaatcctatatcttttgcttcaatttct----tgcata-acttctcacattattagaggatctata----tatacttattctggttgtctca---------cagAACGTTGTGGGTAAATGGAGCTCAAAGCTATTTGCAATTGCGTTGCTTGCTTCCGGTCAGAGTTCAACCATAACCGGAACATATGCTGGACAATACGTTA

upper sequence: GLYMA15G00590.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv09s0070g00210.t01 (Vitis vinifera), 3'ss of exon 10
gtatgtg---aaaaccggagatgtctttcttaccttgggtatattgtagtagtgctaagtttagttgct-----gattctttcacaatttaccccaatccttaag-cttcatatacatttgttgttggtaaggtgctca-----taaaatcatagctgatatatctgacatataa-catactcagAATGTCTTGGGGAAATGGAGCTCAAAACTATTTGGAATTGCTTTGCTTGCATCGGGTCAAAGTTCTACTATTACAGGAACCTACGCAGGACAGTATGTCA
||||||      |   | ||     |         | | |||  |     | |      ||||| | ||     |||| |   | |||  |   |||  |   |  |||  |||   ||||   ||  |   |  | ||       | ||  |   ||||||   | |  | | | |||   |||||||| || || |||||||||||||| || ||||  ||||||||||| ||||| ||||| |||||||| || || ||||| || ||||| || ||||| |
gtatgtctctgtagttgtagcaacatgggcatttattgttatcatccttcaatctctcatttagcttctaaccagattgtgctaaaatccatttcaaatcaggattcttggtatggttttgccttttcttctgaacccaactgtccagatttttcatgatattgttaatttgttatcatttgcagAATGTATTAGGCAAATGGAGCTCAAAGCTTTTTGCTATTGCTTTGCTAGCATCTGGTCAGAGTTCTACGATCACGGGAACATATGCAGGGCAATATGTAA
















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|27446002|gb|CA953125.1|CA953125
EST:     AACTGAGCTGTCAGGATTTGGATCTGAACAAAGCCTCCTTCCTACTCAGA                         AATGTCTTGGGGAAATGGAGCTCAAAACTATTTGGAATTGCTTTGCTTGCA
genomic: AACTGAGCTGTCAGGATTTGGATCTGAACAAAGCCTCCTTCCTACTCAGAgtatgtgaaa ... acatactcagAATGTCTTGGGGAAATGGAGCTCAAAACTATTTGGAATTGCTTTGCTTGCA
EST: gi|7925526|gb|AW831552.1|AW831552
EST:     TCAGGATTTGGATCTGAACAAAGCCTCCTTCCTACTCATA                         AATGTCTTGAGGAAATGGAGCTCAAAACTATTTGGAATTGCTTTGCTTGCA
genomic: TCAGGATTTGGATCTGAACAAAGCCTCCTTCCTACTCAGAgtatgtgaaa ... acatactcagAATGTCTTGGGGAAATGGAGCTCAAAACTATTTGGAATTGCTTTGCTTGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggtaaggtgctcataaaatcatagctgatatatctgacatataacatactcagAATGTCTTGGGGAAATGGAGCTCAAAACTATTTGGAATTGCTTTGCTTGCATCGGGTCAAAGTTCTACTATTACAGGAACCTACGCAGGACAGTATGTCA
                                        atataac  putative branch site (score: 3)
              ataaaatcata  TA-rich tract