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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggttaatcttgttagtttgatgtcaaaatgccatcaactgataaaattgtgactttttggttcggtgagtggtccctaccactggattccatccaacaatcactaaaactctgcaactttttttcctggctaaagcagcattacccttgttagttcaaaaagtaaatatttgaggtttgcttatgcagAGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCCGATGTGTCCAACCAG

Basic information

species Glycine max
transcript GLYMA09G38110.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G38110.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv03s0038g02760.t01 (Vitis vinifera), 3'ss of exon 12
gtgaggttaatcttgttagtttgatgtcaaaatgccatcaactgataaaattgtgactttttggttcggtgagtggtccctaccactggattccatccaacaatcactaaaactctgcaactttttttcctggctaaagcagcattacccttgttagttcaaaaagtaaatatttgaggtttgcttatgcagAGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCCGATGTGTCCAACCAG
                                                                                || |  ||      ||   | || | ||||      | |  ||||||   |||         ||     |||       ||  | |||||   |||    || |   |||||||||||||||||||||| ||||| || | ||||||| ||||||| ||||| |||
-------------------------------------------------------------------------------gtaaccttg---cttattgcataagccctaag--ctcggagattttttaaatggaagttctgacaaggggctta------catcatgtaaaatgttggtaattcc---tgcagAGTGCCATTGGTGAGGGGATGACCCGTAGGGATCATGCCGATGTATCCAATCAG

upper sequence: GLYMA09G38110.1 (Glycine max), 3'ss of exon 12
lower sequence: PP1S100_117V6.1 (Physcomitrella patens), 3'ss of exon 12
gtgaggttaatcttgttagtttgatgtcaaaatgccatcaactgataaaattgtgactttttggttcggtgagtggtccctaccactggattccatccaacaatcactaaaactctgcaactttttttcctggctaaagca-gcattacccttgttagttcaaaaagtaaatatttgaggtttgcttatgcagAGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCCGATGTGTCCAACCAG
                                                                                      ||  | |  |  ||  ||  |  |        ||| |||     ||  | |   | | || |      || | |    |   |   | ||    ||  ||  |||||||||| |||||  |||||||||| |||||||||||||| || || || ||||||
--------------------------------------------------------------------------------------tgtttgctttttaagtatttccca-----cttaacgtttaggtgtgattgagttatgtatcatttcgatttggttgggactaactgagttc--cttcactcctgcagAGTGCTATTGGACAGGGAATGACTCGAAAGGATCATTCTGAAGTCTCTAACCAG
















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|10253833|gb|BE821599.1|BE821599
EST:     ATATATCCACCAATCAATGTCCTTCCATCATTGTCTCGTTTGATGAAG                         AGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCCGATGTGTCCAAC
genomic: ATATATCCACCAATCAATGTCCTTCCATCATTGTCTCGTTTGATGAAGgtgaggttaa ... gcttatgcagAGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCCGATGTGTCCAAC
EST: gi|27426282|gb|CA937802.1|CA937802
EST:     ATATATCCTCCAATCAATGTCCTTCCATCATTGTCTCGTTTGATGAAG                         AGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCTGATGTGTCCAAC
genomic: ATATATCCACCAATCAATGTCCTTCCATCATTGTCTCGTTTGATGAAGgtgaggttaa ... gcttatgcagAGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCCGATGTGTCCAAC
EST: gi|27426098|gb|CA937618.1|CA937618
EST:     ATATATCCACCAATCAATGTCCTTCCATCATTGTCTCGTTTGATGAAG                         AGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCCGATGTGTCCAAC
genomic: ATATATCCACCAATCAATGTCCTTCCATCATTGTCTCGTTTGATGAAGgtgaggttaa ... gcttatgcagAGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCCGATGTGTCCAAC
EST: gi|20812032|gb|BQ296510.1|BQ296510
EST:     ATATATCCACCAATCAATGTCCTTCCATCATTGTCTCGTTTGATGAAG                         AGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCCGATGTGTCCAAC
genomic: ATATATCCACCAATCAATGTCCTTCCATCATTGTCTCGTTTGATGAAGgtgaggttaa ... gcttatgcagAGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCCGATGTGTCCAAC
EST: gi|16277795|gb|BI942566.1|BI942566
EST:     ATATATCCTCCAATCAATGTCCTTCCATCATTGTCTCGTTTGATGAAG                         AGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCTGATGTGTCCAAC
genomic: ATATATCCACCAATCAATGTCCTTCCATCATTGTCTCGTTTGATGAAGgtgaggttaa ... gcttatgcagAGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCCGATGTGTCCAAC
EST: gi|21255992|gb|BQ452880.1|BQ452880
EST:     CACCAATCAATGTCCTTCCATCATTGTCTCGTTTGATGAAG                         AGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCCGATGTGTCCAAC
genomic: CACCAATCAATGTCCTTCCATCATTGTCTCGTTTGATGAAGgtgaggttaa ... gcttatgcagAGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCCGATGTGTCCAAC
EST: gi|16283538|gb|BI945603.1|BI945603
EST:     ATATATCCACCAATCAATGTCCTTGCATCATTGTCTCGTATGATGACG                         AGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCCGATGTGTGCAAC
genomic: ATATATCCACCAATCAATGTCCTTCCATCATTGTCTCGTTTGATGAAGgtgaggttaa ... gcttatgcagAGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCCGATGTGTCCAAC
EST: gi|193391746|gb|FK354237.1|FK354237
EST:     TATATCCACCAATCAATGTCCTTCCATCATTGTCTCGTTTGATGAAG                         AGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCCGATGTGTCCAAC
genomic: TATATCCACCAATCAATGTCCTTCCATCATTGTCTCGTTTGATGAAGgtgaggttaa ... gcttatgcagAGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCCGATGTGTCCAAC
EST: gi|16277730|gb|BI942533.1|BI942533
EST:     ATATATCCACCAATCAATGTCCTTCCATCATTGTCTCGTTTGATGAAG                         AGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCCGATGTGTCCAAC
genomic: ATATATCCACCAATCAATGTCCTTCCATCATTGTCTCGTTTGATGAAGgtgaggttaa ... gcttatgcagAGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCCGATGTGTCCAAC
EST: gi|9258589|gb|BE346736.1|BE346736
EST:     ATATATCCACCAATCAATGTCCTTCCATCATTGTCTCGTTTGATGAAG                         AGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCCGATGTGTCCAAC
genomic: ATATATCCACCAATCAATGTCCTTCCATCATTGTCTCGTTTGATGAAGgtgaggttaa ... gcttatgcagAGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCCGATGTGTCCAAC
EST: gi|16284553|gb|BI946150.1|BI946150
EST:     ATATATCCACCAATCAATGTCCTTCCATCATTGTCTCGTTTGATGAAG                         AGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCCGATGTGTCCAAC
genomic: ATATATCCACCAATCAATGTCCTTCCATCATTGTCTCGTTTGATGAAGgtgaggttaa ... gcttatgcagAGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCCGATGTGTCCAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcagcattacccttgttagttcaaaaagtaaatatttgaggtttgcttatgcagAGTGCCATTGGTGAGGGAATGACACGAAAGGATCATTCCGATGTGTCCAACCAG
                                          tttgctt  CT-rich tract
                ttagttcaaaaagtaa  TA-rich tract