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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgaatgttatttattgaacaatcatgactttttaatataataagtatttcttagctgactttaatgacctatttgcctgttttagCTTAGCTGTCCGTGATCTTTCCAACTTGGTAAAACCTGAGGATATTATAACTTCAGAAAATTTAACCACCCTTCTTGCAATTGTTCCCAAGTATTCACAG

Basic information

species Glycine max
transcript GLYMA02G07260.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G07260.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os05g51530.1 (Oryza sativa), 3'ss of exon 5
---------------------------------------gtgtgaatgttatttattgaacaatcatgactttttaatataa----taagtatttcttagctgactttaatga-cctatttgcctgtttta--gCTTAGCTGTCCGTGATCTTTCCAACTTGGTAAAACCTGAGGATATTATAACTTCAGAAAATTTAACCACCCTTCTTGCAATTGTTCCCAAGTATTCACAG
                                          |   |||| | | |  ||  |    ||  |   |   ||     | |   ||| ||||   ||| |||| |   | ||| |||  | ||  ||||||| || ||||||||||||||  |||||||||| ||||||||  | || |||||| || ||   || || |||||| ||||||| ||||| || || 
gtagattgcatgccactgagtttttggctttaagccaattctttcttgttttatttcaaaggactcagaaatgcgagggtatggtttcatcttttgttagtcaactctaattagtttgttttccttctgtatagCTTAGCAGTTCGTGATCTTTCCAATCTGGTAAAACCAGAGGATATGGTCACATCAGAACATCTAGTGACACTCCTTGCAGTTGTTCCTAAGTACTCTCAA

upper sequence: GLYMA02G07260.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G128995_T01 (Zea mays), 3'ss of exon 5
---------------------------------------------------------------------------gtgtgaatgttatt---tattgaacaatcatgactttttaatataataagta---tttctta-gctgactttaatgacctatttgcctgttttagCTTAGCTGTCCGTGATCTTTCCAACTTGGTAAAACCTGAGGATATTATAACTTCAGAAAATTTAACCACCCTTCTTGCAATTGTTCCCAAGTATTCACAG
                                                                            ||| || |  |      |    | |   ||| |||  | || | ||  ||    |||| ||  || | |    || ||| ||    |||   |||||||| || ||||||||||||||  |||||||||| |||||||| || || || ||| || |    || ||||||||||||||||||||||| || || 
gtaaattgcgctgacatactttgtgtgttcagactctagaggaagtgcttgattccaggactttttccttgtttattgtaaaaggaacaggagagcagaaatgaatggcttactcattttatctgttgcctttcctatactaattagtttggccttttattgtgtgaaagCTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCACCTCGGAACATCTCGTGACACTTCTTGCAATTGTTCCCAAGTACTCCCAA

upper sequence: GLYMA02G07260.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G128995_T05 (Zea mays), 3'ss of exon 5
---------------------------------------------------------------------------gtgtgaatgttattt---attgaacaatcatgactttttaatataataagta---tttctta-gctgactttaatgacctatttgcctgttttagCTTAGCTGTCCGTGATCTTTCCAACTTGGTAAAACCTGAGGATATTATAACTTCAGAAAATTTAACCACCCTTCTTGCAATTGTTCCCAAGTATTCACAG-----
                                                                            ||| || |  |      |    | |   ||| |||  | || | ||  ||    |||| ||  || | |    || ||| ||    |||   |||||||| || ||||||||||||||  |||||||||| |||||||| || || || ||| || |    || ||||||||||||||||||||||| || ||      
gtaaattgcgctgacatactttgtgtgttcagactctagaggaagtgcttgattccaggactttttccttgtttattgtaaaaggaacaggagagcagaaatgaatggcttactcattttatctgttgcctttcctatactaattagtttggccttttattgtgtgaaagcttagCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCACCTCGGAACATCTCGTGACACTTCTTGCAATTGTTCCCAAGTACTCCCAAAAAGA

upper sequence: GLYMA02G07260.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G177912_T02 (Zea mays), 3'ss of exon 5
------gtgtgaatgttatttattgaacaatcatgactttttaatataat-aagtatttcttagctgactttaatgaccta-----tttgcctgttttagCTTAGCTGTCCGTGATCTTTCCAACTTGGTAAAACCTGAGGATATTATAACTTCAGAAAATTTAACCACCCTTCTTGCAATTGTTCCCAAGTATTCACAG
         |   |||| | |    | |||  | ||      | |    | || |  |||||      |  | || |  |      ||   ||||   |||||||| || ||||||||||||||  |||||||||| ||||||||  |    |||||  || ||   || |||||||| |||||||| ||||| || || 
tcaattcctttgttgttttatgcaaagcaagtaggaaggcagagttaggtcaactgcttcttgttatgcactgattagtttgtgttttcttctgtgacagCTTAGCAGTTCGTGATCTTTCCAATCTGGTAAAACCAGAGGATATGGTCTGCTCAGAGCATCTAGTAACACTTCTTGCTATTGTTCCAAAGTACTCCCAA

upper sequence: GLYMA02G07260.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G144372_T01 (Zea mays), 3'ss of exon 5
------------------------------------------------------------------------gtgtgaatgttatttattgaaca----atcatgactttttaatataataagt--atttcttagctgactttaatgacctatttgcctgtttt--------agCTTAGCTGTCCGTGATCTTTCCAACTTGGTAAAACCTGAGGATATTATAACTTCAGAAAATTTAACCACCCTTCTTGCAATTGTTCCCAAGTATTCACAG
                                                                         |||  || |||   |  |||||    | |   |||   |  ||||   | |  || | ||   |  || || | |    |||| || || |        |||||||| || ||||||||||||||  |||||||||| |||||||| || || || ||| || |    || ||||||||||| ||||||||||| || || 
gtaaattgcattgtcatacttttgtgcagaccctggaggaactgtttgatgccaagaccattacgttttcccttgtttattttaaaaag-gaacaggagagcggaactggatggtatatccatttcatctgttgctttcctgtactaattagtttgtcttttattgtgtgaaagCTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCACCTCGGAACATCTTGTGACACTTCTTGCAATCGTTCCCAAGTACTCCCAA

upper sequence: GLYMA02G07260.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv14s0068g01280.t01 (Vitis vinifera), 3'ss of exon 5
---------gtgtgaatgttatttattgaacaatcatgactttttaatataataagtatttcttagctgactttaatgacctatttgcctgttttagCTTAGCTGTCCGTGATCTTTCCAACTTGGTAAAACCTGAGGATATTATAACTTCAGAAAATTTAACCACCCTTCTTGCAATTGTTCCCAAGTATTCACAG
         |  ||||   | ||| | | |||| || || |||   || || |  | |||||||  ||||       ||||| ||||| || || ||| ||||||| ||||||||||||||| | ||||| || ||||| |||||  | |||||| |||||   || |||||||||||||||||||||||||| |||
gtataccttggttgaaatctgtttgtaggacaaacaagatttt---atttactgtg-atttcttttctgatc-----gacctctttgcttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGCCTCAGAACATTTAGTGACACTTCTTGCAATTGTTCCCAAGTATTCTCAG

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|298166776|gb|HO010215.1|HO010215
EST:     AACAATATCCGCAGTCAGCTTAATGCCATCAACCGAAAGCAAACTGGAAG                         CTTAGCTGTCCGTGATCTTTCCAACTTGGTAAAACCTGAGGATATTATAAC
genomic: AACAATATCCGCAGTCAGCTTAATGCCATCAACCGAAAGCAAACTGGAAGgtgtgaatgt ... cctgttttagCTTAGCTGTCCGTGATCTTTCCAACTTGGTAAAACCTGAGGATATTATAAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttaatataataagtatttcttagctgactttaatgacctatttgcctgttttagCTTAGCTGTCCGTGATCTTTCCAACTTGGTAAAACCTGAGGATATTATAACTTCAGAAAATTTAACCACCCTTCTTGCAATTGTTCCCAAGTATTCACAG
                                             cctgtttt  CT-rich tract
     tataataagtatttct  TA-rich tract