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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGACATCCACCAGACAAATGTTCCTCACATCAGGGTTGAATTTCGACACACTgtatgtacctctgtactgtatttaaataatgtatcttagtgtgccttttctgttaggtgttgtttggttcacggaatatcatgtaaatggtaataagttt...

Basic information

species Zea mays
transcript GRMZM2G134396_T01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G134396_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os07g49270.1 (Oryza sativa), 5'ss of exon 19
GTCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGACATCCACCAGACAAATGTTCCTCACATCAGGGTTGAATTTCGACACACTgtatgtacctctgtactg---tatttaaataatgtatcttagtgtgccttttctgttag-gtgttgtttggttcacggaatatcat--gtaaatggtaataagttt
 || |||||||| |||||||||||||||| ||| ||||  || ||||||||||| ||||||||||||||||||||||||||| ||||||| ||||||||||||||||| || |||||    | | |   |   || |  |    | || |   ||| ||   |||  ||  |    | |||  | |  || | |||     ||   
-TCACACTGGATTGGGAGAAACTACTACAAAAGAGGTCATGATGGCAATGACATTCACCAGACAAATGTTCCTCACATCAGGATTGAATTCCGACACACTgtatgtacttc-gtactagcttctctgcctggagtctgatctcttcccgtacttgtcagcacgtttgtttctgttggtaattgcgtttgttactggcccgcag---

upper sequence: GRMZM2G134396_T01 (Zea mays), 5'ss of exon 1
lower sequence: PP1S168_82V6.1 (Physcomitrella patens), 5'ss of exon 18
GTCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGACATCCACCAGACAAATGTTCCTCACATCAGGGTTGAATTTCGACACACTgtatgtacctctgtactgtatttaaataatgtatcttagtgtgccttttc---tgttaggtgt-tgtttggttcacggaatatcatgtaaatggtaa--taagttt------------------------------------
 || |||||| | || |  || || |||| ||||||||| ||||||||||| |||||  |||||||||| ||||||||  | || || || || ||    || || |    |   ||   ||||     || | |  | | |    || |   | |||| | | || | ||| ||     | |    |||||       | |||||                                    
-TCGCACTGGCTTGGAAAGAATTATTACAAAAGGGGTCCTGAGGGCAATGATATCCATAAGACAAATGTCCCTCACATGCGCGTGGAGTTCCGTCATCAGgtgtgaaatcata-gcttcttttactgcttgcaacccattctatagttacgcattttagatatatgatgggtacattttgtttgtcataaatctctggtttagtttctggttggatgctcatgagtctatgttgtcctgcag
















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|161590017|gb|EY959294.1|EY959294
EST:     ACATCCACCAGACAAATGTTCCTCACATCAGGGTTGAATTTCGACACACT                         ATCTGGAAAGAAGAAATGGAGCTGATAC
genomic: ACATCCACCAGACAAATGTTCCTCACATCAGGGTTGAATTTCGACACACTgtatgtacct ... tcgactgcagATCTGGAAAGAAGAAATGGAGCTGATAC
EST: gi|24769083|gb|CA404212.1|CA404212
EST:     ACATCCACCAGACAAATGTTCCTCACATCAGGGTTGAATTTCGACCCACT                         ATCTGGAAAGAAGAAATGGAGCTGATACATTTTGGAAATGTTAACCTACCC
genomic: ACATCCACCAGACAAATGTTCCTCACATCAGGGTTGAATTTCGACACACTgtatgtacct ... tcgactgcagATCTGGAAAGAAGAAATGGAGCTGATACATTTTGGAAATGTTAACCTACCC
EST: gi|211360498|gb|FL383506.1|FL383506
EST:     ACATCCACCAGACAAATGTTCCTCACATCAGGGTTGAATTTCGACACACT                         ATCTGGAAAGAAGAAATGGAGCTGATACATTTTGGAAATGTTAACCTACCC
genomic: ACATCCACCAGACAAATGTTCCTCACATCAGGGTTGAATTTCGACACACTgtatgtacct ... tcgactgcagATCTGGAAAGAAGAAATGGAGCTGATACATTTTGGAAATGTTAACCTACCC