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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtccgtgtcccgagtctccaccaccatccgtctcttgctgctcgctgctgcttgatgctttcttctcatccatggcgtgcgccattgttgcccagGGGTACAAGAACTTCAACAAGGCCGCGAGGGACCTCATCGGACGCCTCCAGAAGATCGACGGAGACAACTACCCTGAG

Basic information

species Zea mays
transcript GRMZM2G171349_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G171349_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g04030.3 (Oryza sativa), 3'ss of exon 2
gtccgtgtcccgagtctccaccacca-tccgtctcttgctgctcgctgctgct--tgatgctttcttctcatccat-ggcgtgcgccattgttgccc-----agGGGTACAAGAACTTCAACAAGGCCGCGAGGGACCTCATCGGACGCCTCCAGAAGATCGACGGAGACAACTACCCTGAG
     || |     |   |   || | |   | |||   ||   | || |     |    | |||||| |||||||     |      |  |||        |||||||||||||||||||||||||||| ||||| |||||||| |||||||||||| |||| || ||||||||||| |||
----atgactaacatgcacgaaacaagtagatatctcattgagtgatgatttcactttccccttcttcacatccattaatattaattgtgattggttgatatagGGGTACAAGAACTTCAACAAGGCCGCCAGGGATCTCATCGGCCGCCTCCAGAAGGTCGATGGTGACAACTACCCAGAG

upper sequence: GRMZM2G171349_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA16G24670.1 (Glycine max), 3'ss of exon 3
------------------------------------------------------------------------------gtccgtgtcccgagtctccaccaccatccgtctcttgctgctcgctgctgcttgatgctttcttctcatccatgg----cgtg---------cgccat----tgttgcccagGGGTACAAGAACTTCAACAAGGCCGCGAGGGACCTCATCGGACGCCTCCAGAAGATCGACGGAGACAACTACCCTGAG
                                                                               ||  | | |  |||   |||  | |   |   |||| |               |        | | |   |||       ||          || ||    | |  | ||||||   |||||||||||||||   || ||||| ||||||   ||||| |||||||| ||||| |||||||||||||| 
gtacgtaacagaaatagtttatctattagccattccaatattgaagttaaaaaaccagcatgacaaattgaacttactatctttattc--agttcacacttcaaaatgaaccttgatatctatgagaatgaaaaagaaatgtgtaaaatatgaaaaatatgatgaaaacttgctatgttttatctcacagGGGCTTAAGAACTTCAACAAGCATGCCAGGGAGCTCATCACCCGCCTTCAGAAGATTGACGGTGACAACTACCCTGAA
















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|160481289|gb|EY254211.1|EY254211
EST:     ACCATCCTTGACGTCTCCGGCGTG                         GGGTACAAGAACTTCAACAAGGCCGCGAGGGACCTCATCGGACGCCTCCAG
genomic: ACCATCCTTGACGTCTCCGGCGTGgtccgtgtcc ... tgttgcccagGGGTACAAGAACTTCAACAAGGCCGCGAGGGACCTCATCGGACGCCTCCAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcgctgctgcttgatgctttcttctcatccatggcgtgcgccattgttgcccagGGGTACAAGAACTTCAACAAGGCCGCGAGGGACCTCATCGGACGCCTCCAGAAGATCGACGGAGACAACTACCCTGAG
         gcttgat  putative branch site (score: 5)