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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttactctaaccttgaaactgatttcacggtgcatgcatgcatgagactgagtgctgtttttgttgtgattataaccttgttttattgttgtgttgcacagATGGGGATATTTTGTTTGCCACCTTCTGGGGTCATTCCTCTTCACAATCACCCTGGAATGACGGTTTTCAGTAAGCTACTTTTTGGCACTATGCACATCA

Basic information

species Glycine max
transcript GLYMA13G05230.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G05230.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G108898_T02 (Zea mays), 3'ss of exon 2
--gtacttactctaaccttgaaactgat-ttcacggtgcatgcatgcatgagactgagtgctgtttttgttgtgattataaccttgttttattgttgtgttgcacagATGGGGATATTTTGTTTGCCACCTTCTGGGGTCATTCCTCTTCACAATCACCCTGGAATGACGGTTTTCAGTAAGCTACTTTTTGGCACTATGCACATCA
   | ||||| |    ||   | | | | || ||  |  |  |||     ||             | | | |||   |||||     ||  | ||        |||||| || || |||||||||||| |    || ||||||||||| |||||||||||||| ||||| || ||||| |||||  | |||||  | ||||| || |
gtatgcttacccactactaacagcagttcttgacaatttac-catatcgaagctgtcacataagctatatggtgtacataactgcacttgttcgt--------acagATCGGCATCTTTTGTTTGCCATCGAGGGGTGTCATTCCTCTCCACAATCACCCTGGCATGACTGTGTTCAGCAAGCTTTTGTTTGGTGCCATGCATATAA

upper sequence: GLYMA13G05230.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G15120.1 (Arabidopsis thaliana), 3'ss of exon 2
gtacttactctaaccttgaaactgatttcacggtgcatgcatgcatgagactg-agtgctgtttttgttgtgattataaccttgttttattgttgtgttg-cacagATGGGGATATTTTGTTTGCCACCTTCTGGGGTCATTCCTCTTCACAATCACCCTGGAATGACGGTTTTCAGTAAGCTACTTTTTGGCACTATGCACATCA
                        ||| |||  | ||  ||  |       || | || | | ||| ||||| | ||||       |  ||   || ||  | ||||| ||||| || ||||||||||||||||| || ||||||||||| || || || || ||||| ||||| |||||||| || ||||| || ||||||||||
--------------------gtaaattccac--tacaaacactctctcacttgtattgttctctttcttgtggt-ataagtaatcatggttagggttttatcgcagATTGGGATTTTCTGTTTGCCACCTTCTGGTGTTATTCCTCTTCATAACCATCCAGGGATGACAGTTTTTAGTAAGCTTCTCTTTGGTACAATGCACATCA

upper sequence: GLYMA13G05230.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv14s0108g00090.t01 (Vitis vinifera), 3'ss of exon 2
gtacttactctaaccttgaaactgatttcac---ggtgcatgcatgcatgagactgag-tgctgtttttgttgtgattataaccttgttttattgttgtgttgcacagATGGGGATATTTTGTTTGCCACCTTCTGGGGTCATTCCTCTTCACAATCACCCTGGAATGACGGTTTTCAGTAAGCTACTTTTTGGCACTATGCACATCA
                   |  |||||||     |||||     || ||   | |||| ||     |   ||  |   ||  |  |  | | |  |          |||| ||||| || || ||||| || || || |||||||| ||||| ||||| ||||||||||||||||||||||| || || || ||  ||||||||||||
----------------gtgagttgatttcttttaggtgctactgtggattgtaatgagatgggaactccctttcggccatggctctcatatgtgttcaccccttgtagATTGGGATCTTCTGCTTGCCTCCATCGGGTGTCATTCCGCTTCATAATCATCCTGGAATGACGGTTTTCAGTAAACTTCTCTTCGGGTCTATGCACATCA

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|254349262|gb|GR860060.1|GR860060
EST:     GAGTGCCAAGAATCACGTACCTGCACATATATGAGTGTGAAAAGTTCTCG                         ATGGGGATATTTTGTTTGCCACCTTCTGGGGTCATTCCTCTTCACAATCAC
genomic: GAGTGCCAAGAATCACGTACCTGCACATATATGAGTGTGAAAAGTTCTCGgtacttactc ... tgttgcacagATGGGGATATTTTGTTTGCCACCTTCTGGGGTCATTCCTCTTCACAATCAC
EST: gi|24206164|gb|BU965417.1|BU965417
EST:     GAGTGCCAAGAATCCCGTACCTGCACATATATGAGTGTGAAAAGTTCTCG                         ATGGGGATATTTTGTTTGCCACCTTCTGGGGTCATTCCTCCTCACAATCAC
genomic: GAGTGCCAAGAATCACGTACCTGCACATATATGAGTGTGAAAAGTTCTCGgtacttactc ... tgttgcacagATGGGGATATTTTGTTTGCCACCTTCTGGGGTCATTCCTCTTCACAATCAC
EST: gi|254339339|gb|GR848056.1|GR848056
EST:     GAAAAGTTCTTCG                         ATGGGGATATTTTGTTTGCCACCTTCTGGGGTCATTCCTCTTCACAATCA
genomic: GAAAAGTTC-TCGgtacttactc ... tgttgcacagATGGGGATATTTTGTTTGCCACCTTCTGGGGTCATTCCTCTTCACAATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgagtgctgtttttgttgtgattataaccttgttttattgttgtgttgcacagATGGGGATATTTTGTTTGCCACCTTCTGGGGTCATTCCTCTTCACAATCACCCTGGAATGACGGTTTTCAGTAAGCTACTTTTTGGCACTATGCACATCA
                       ttataac  putative branch site (score: 2)
                               ttgttttatt  TA-rich tract