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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcgagggtcttgtgcttgtgcagttgagcttcctggacatccggtcttggatcctggataaacccttctcttgttttgcagAGGATCACCGAGAAGCAGAACAAGGTGGTGATCACGGACCGGATGTGGGCGAGGGTGCTGTGCTCGACGAACCAGCCCTGCTTCCTGAGCCACGAGGACG

Basic information

species Zea mays
transcript GRMZM2G132069_T02
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G132069_T01 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os01g09570.1 (Oryza sativa), 3'ss of exon 10
---------------------------gtaagtcgagggtcttgtgctt-gtgcagttgagcttcctggacatccg----gtcttgg-atcctggata---aacccttctcttgttttgcagAGGATCACCGAGAAGCAGAACAAGGTGGTGATCACGGACCGGATGTGGGCGAGGGTGCTGTGCTCGACGAACCAGCCCTGCTTCCTGAGCCACGAGGACG
                            | | ||    || ||  | |  || |||||   |   |  ||||||       || ||  |  ||||| |   || |     |   || | ||||| ||||| |||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||
gtaagtccagaacactctttttcaatgatcaatctttagtgttcagttcagttcagttcttcacaccagacatcaaccatatcctgataatctggacactgaaactccggcgatttctacagAGAATCACGGAGAAGCAGAACAAGGTGGTGATCACGGACAGGATGTGGGCGAGGGTGCTGTGCTCGACGAACCAGCCATGCTTCCTGAGCCACGAGGACG

upper sequence: GRMZM2G132069_T01 (Zea mays), 3'ss of exon 10
lower sequence: AT4G29220.1 (Arabidopsis thaliana), 3'ss of exon 12
gtaagtcg-agggtcttgtgcttgtgcagttgagcttcctggacatc-----cggtcttggatcctggataa-acccttctcttgttttgcagAGGATCACCGAGAAGCAGAACAAGGTGGTGATCACGGACCGGATGTGGGCGAGGGTGCTGTGCTCGACGAACCAGCCCTGCTTCCTGAGCCACGAGGACG
|| ||||  |||  |   | ||  | |   ||||| ||    ||||      |  | | |||  |   |||| |   ||    | || || |||||||||| ||||| |||||||||||||||||||| ||| | |||||||||||| |  |||  ||||||||||| ||  | ||| |||  || |  ||| 
gtgagtctcaggaccaaatactcatac--ctgagcatctcttacatttatatcaatttgggaatcctaataacatggtttgaatattgtgtagAGGATCACGGAGAAACAGAACAAGGTGGTGATCACTGACAGAATGTGGGCGAGGCTTTTGTCTTCGACGAACCAACCGAGTTTCATGAAGCAAGCTGACA

upper sequence: GRMZM2G132069_T01 (Zea mays), 3'ss of exon 10
lower sequence: AT4G26270.1 (Arabidopsis thaliana), 3'ss of exon 12
----gtaa-gtcgagggtc-ttgtgcttgtgcagttgagcttcctgga--catc-cggtcttgga-----tcctggataaacccttctcttgttttgcagAGGATCACCGAGAAGCAGAACAAGGTGGTGATCACGGACCGGATGTGGGCGAGGGTGCTGTGCTCGACGAACCAGCCCTGCTTCCTGAGCCACGAGGACG
     ||  |||    ||  |  |    ||  |  | | | ||||     ||||    || | |      |  |   |||||     | || | || |||||||| || ||||| |||||| | ||||||||||| ||| |||||||||| ||| | || |  ||||| ||||||||  | ||| || ||| | | || |
catcatactgtcatcagttatcatcaccgttaaagtcatcatcctcatatcatcataatcatagtatcacttttatgtaaacatcatttttatgttacagAGGATAACGGAGAAACAGAACCATGTGGTGATCACAGACAGGATGTGGGCAAGGCTACTCTCTTCGACAAACCAGCCGAGTTTCTTGGGCCCCAAAGATG

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|84969698|gb|DW468127.1|DW468127
EST:     GCTTCATCGTCGCTCCGGTCAATGGCAGACACGCCTACATCCCGTTCTAT                         AGGATCACCGAGAAGCAGAACAAGGTGGTGATCACGGACCGGATGTGGGCG
genomic: GCTTCATCGTCGCTCCGGTCAATGGCAGACACGCCTACATCCCGTTCTATgtaagtcgag ... tgttttgcagAGGATCACCGAGAAGCAGAACAAGGTGGTGATCACGGACCGGATGTGGGCG
EST: gi|28982496|gb|BQ538192.2|BQ538192
EST:     GCTTCATCGTCGCTCCGGTCAATGGCAGACACGCCTACATCCCGTTCTAT                         AGGATCACCGAGAAGCAGAACAAGGTGGTGATCACGGACCGGATGTGGGCG
genomic: GCTTCATCGTCGCTCCGGTCAATGGCAGACACGCCTACATCCCGTTCTATgtaagtcgag ... tgttttgcagAGGATCACCGAGAAGCAGAACAAGGTGGTGATCACGGACCGGATGTGGGCG
EST: gi|76016888|gb|DT944058.1|DT944058
EST:     GCTTCATCGTCGCTCCGGTCAATGGCAGACACGCCTACATCCCGTTCTAT                         AGGATCACCGAGAAGCAGAACAAGGTGGTGATCACGGACCGGATGTGGGCG
genomic: GCTTCATCGTCGCTCCGGTCAATGGCAGACACGCCTACATCCCGTTCTATgtaagtcgag ... tgttttgcagAGGATCACCGAGAAGCAGAACAAGGTGGTGATCACGGACCGGATGTGGGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcttcctggacatccggtcttggatcctggataaacccttctcttgttttgcagAGGATCACCGAGAAGCAGAACAAGGTGGTGATCACGGACCGGATGTGGGCGAGGGTGCTGTGCTCGACGAACCAGCCCTGCTTCCTGAGCCACGAGGACG
                                    cccttctcttgttttg  CT-rich tract
                                            ttgtttt  TA-rich tract