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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgttttgaactatttagttgcaacttgtaagtatacactgttatcttatatgaaactgacagtctgacacaaatatctgtagCGCAACAGCTCAAGATATCCGCACCATGATTATTGGTCGGTTGCTTGCTGGAATTGGTATTGGGATCTCATCTGCACTTGTACCCCTTTACATATCTGAG

Basic information

species Zea mays
transcript GRMZM2G098011_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G098011_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g04190.2 (Oryza sativa), 3'ss of exon 5
----------------------gtgtgttttgaactatttagttgcaacttgtaagtatacactgttatcttatatgaaactgacagtctgacaca---aatatctgtagCGCAACAGCTCAAGATATCCGCACCATGATTATTGGTCGGTTGCTTGCTGGAATTGGTATTGGGATCTCATCTGCACTTGTACCCCTTTACATATCTGAG
                       |||||||| |||||   |  | || ||||       | || | |||  |  ||  ||| || |  || |||||   || || || || ||||||||||| ||| | ||||| ||||||||||| || || |||||||| ||||||||||| || || ||||| ||||| ||||||||||||||||||
gtgtgtctatagattcgattaattgtgtttt-aactaggaatgtaca-cttgcttaagaaaaccgctattgt-catccaacgga-aacctaacacatgaaagatttgcagTGCAACAGCTCATGATGTTCGCACAATGATTATTGGCCGATTACTTGCTGGGATTGGTATTGGCATATCTTCTGCTCTTGTGCCCCTTTACATATCTGAG

upper sequence: GRMZM2G098011_T02 (Zea mays), 3'ss of exon 5
lower sequence: AT5G16150.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgtgttttgaactatttagttgcaacttgtaagtatacactgttatcttatatgaaactgacagtctgacacaaatatctgtagCGCAACAGCTCAAGATATCCGCACCATGATTATTGGTCGGTTGCTTGCTGGAATTGGTATTGGGATCTCATCTGCACTTGTACCCCTTTACATATCTGAG
||   |||| ||  | | ||    | ||  |    | ||  |  |   ||   | |  |      |||      | |   |  || |||||||||||   | | |  || |||||| | || ||  |||| ||||||||||| ||||| |||||||| ||  ||||||| |||||||||||||||
gtaaattttcaagcactaagccatacctattggtgagacgttaattgatttcttaacgcattggttctttttttattgatt--agTGCAACAGCTCAGAGTGTGCAGACTATGATTGTGGGACGTCTGCTCGCTGGAATTGGAATTGGAATCTCATCAGCGATTGTACCACTTTACATATCTGAG

upper sequence: GRMZM2G098011_T02 (Zea mays), 3'ss of exon 5
lower sequence: Vv14s0006g02720.t01 (Vitis vinifera), 3'ss of exon 5
-------gtgtgttttgaactatttagttgcaacttgtaagtatacactgttatcttatatgaaactgacagtctgacacaaata---tctgtagCGCAACAGCTCAAGATATCCGCACCATGATTATTGGTCGGTTGCTTGCTGGAATTGGTATTGGGATCTCATCTGCACTTGTACCCCTTTACATATCTGAG
        | |||| |  || ||    |   ||  | |   ||||     | |    | ||     | | |  |  |   |  |    | |  || || ||||| ||   | | |  || ||||| |||||| |||| |||||||| ||||| ||||| ||||||||||||||||| || |||||||||||||||
gtctgtcatttgttgtagaccataagatcataatctttgtttatatcaaataaaagaaaatatttataataaacccaagtatgttcacttttcagTGCGACAGCACAGAGTGTGCAGACTATGATAATTGGTAGGTTACTTGCTGGCATTGGAATTGGCATCTCATCTGCACTTGTGCCACTTTACATATCTGAG

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|211244569|gb|FL131418.1|FL131418
EST:     AGAACATTCATCCTGGATGCAGCCCCACTGGCTGTAGGTGCATTCTTGAG                         CGCAACAGCTCAAGATATCCGCACCATGATTATTGGTCGGTTGCTTGCTGG
genomic: AGAACATTCATCCTGGATGCAGCCCCACTGGCTGTAGGTGCATTCTTGAGgtgtgttttg ... atatctgtagCGCAACAGCTCAAGATATCCGCACCATGATTATTGGTCGGTTGCTTGCTGG
EST: gi|13198611|gb|BG354413.1|BG354413
EST:     AGAACATTCATCCTGGATGCAGCCCCACTGGCTGTAGGTGCATTCTTGAG                         CGCAACAGCTCTTTATATCCGCACCATGATTATTGGTCGGTTGCTTGCTGG
genomic: AGAACATTCATCCTGGATGCAGCCCCACTGGCTGTAGGTGCATTCTTGAGgtgtgttttg ... atatctgtagCGCAACAGCTCAAGATATCCGCACCATGATTATTGGTCGGTTGCTTGCTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taagtatacactgttatcttatatgaaactgacagtctgacacaaatatctgtagCGCAACAGCTCAAGATATCCGCACCATGATTATTGGTCGGTTGCTTGCTGGAATTGGTATTGGGATCTCATCTGCACTTGTACCCCTTTACATATCTGAG
             ttatcttatatgaaa  TA-rich tract