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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcttccacgtctgaccactgaccacataagcagaaaagacagcagagggcttagcactgcagggcatctagtcccaattattcatctctcaatcactgcctatctgcagATTGTCTGCTCATTTCTTGTTCGAGATATGGGTGTTGATTGGCGAATGGGAGCCGAATGGTTCGAGACATGCTTATTGGATTATGACCCAGCTTCGAATT

Basic information

species Zea mays
transcript GRMZM2G103897_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G103897_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os06g45100.1 (Oryza sativa), 3'ss of exon 9
gtatgcttccacgtctgaccac-tgaccacataagcagaaaagacagcagagggcttagcactgcagggcatctagtcccaattattcatctctcaatcactgcctatctgcagATTGTCTGCTCATTTCTTGTTCGAGATATGGGTGTTGATTGGCGAATGGGAGCCGAATGGTTCGAGACATGCTTATTGGATTATGACCCAGCTTCGAATT
|||  | |   | ||| | ||| | | || | | ||||||       |  ||||     |||   ||| |||||  ||| || ||| |||||||||     ||| | ||| |||||||||||||||||||| || |||||||||||| ||||||||||||||||||| |||||||| || |||||| |||||||||||||||||||||| ||||
gtaaccattggcatcttatcacataagcagaaatgcagaatgactgcccaagggt---acacccaaggccatctgatcc-aagtatccatctctca----ttgcttctctacagATTGTCTGCTCATTTCTGGTCCGAGATATGGGTATTGATTGGCGAATGGGAGCTGAATGGTTTGAAACATGCCTATTGGATTATGACCCAGCTTCAAATT

upper sequence: GRMZM2G103897_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA04G07870.1 (Glycine max), 3'ss of exon 10
----------------------------------------gtatgcttccacgtctgaccac-tgaccacataagcagaaaagacagcagagggctt-agcactgcagggcatctagtcccaattattcatctctcaatc---actgcctatctg-cagATTGTCTGCTCATTTCTTGTTCGAGATATGGGTGTTGATTGGCGAATGGGAGCCGAATGGTTCGAGACATGCTTATTGGATTATGACCCAGCTTCGAATT
                                           ||||   |  |   || |   ||       | || |  ||| |  ||   |||| ||         |||   |  |   || | | |    | || |   | | | | | || |||||||| || |||||||||||||| ||||||||  |||||||||| |||||||| |||||||| ||||||||  | ||||||||||| |||  ||| ||||
gtgaaccagagagcctattatagtgtttctacaatatattaattgctagaaatttctacaatacgattcttggaccaaagtagataatagtatgctttagtgggattttgcaaaca-cctttataactgaaacatgaaactcgattacttttttgacagATTGTGTGTTCATTTCTTGTTCGTGATATGGGCATTGATTGGCGCATGGGAGCAGAATGGTTTGAGACATGTCTTTTGGATTATGATCCATGTTCTAATT

upper sequence: GRMZM2G103897_T01 (Zea mays), 3'ss of exon 9
lower sequence: EFJ22017 (Selaginella moellendorffii), 3'ss of exon 10
gtatgcttccacgtctgaccactgaccacataagcagaaaagacagcagagggcttagcactgcagggcatctagtcccaattattcatctctcaatcactgcctatctgcagATTGTCTGCTCATTTCTTGTTCGAGATATGGGTGTTGATTGGCGAATGGGAGCCGAATGGTTCGAGACATGCTTATTGGATTATGACCCAGCTTCGAATT
                                                    | || | |       | |  || |  |  | |    |||  |||  |    || ||  |||||||| ||||| ||| | || || ||||||||  |||||||||| ||||||||||| ||||| ||  | ||  |  ||||||| || |||   || || |
----------------------------------------------------gtttggaaaacagaagaacataatttccttaaggagtctaacaa--atcaactttc--cagATTGTTTGCTCGTTTTTAGTCCGTGATATGGGGATTGATTGGCGCATGGGAGCCGAGTGGTTTGAATCCTGTCTGCTGGATTACGATCCATGCTCTAACT

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|76283830|gb|DV023398.1|DV023398
EST:     ACATGAGGGAGCTTTCAGCCACCGGTTACATGTCCAACCGTGGTCGTCAG                         ATTGTCTGCTCATTTCTTGTTCGAGATATGGGTGTTGATTGGCGAATGGGA
genomic: ACATGAGGGAGCTTTCAGCCACCGGTTACATGTCCAACCGTGGTCGTCAGgtatgcttcc ... ctatctgcagATTGTCTGCTCATTTCTTGTTCGAGATATGGGTGTTGATTGGCGAATGGGA
EST: gi|32909346|gb|CF014158.1|CF014158
EST:     ACATGAGGGAGCTTTCAGCCACCGGTTACATGTCCAACCGTGGTCGTCAG                         ATTGTCTGCTCATTTCTTGTTCGAGATATGGGTGTTGATTGGCGAATGGGA
genomic: ACATGAGGGAGCTTTCAGCCACCGGTTACATGTCCAACCGTGGTCGTCAGgtatgcttcc ... ctatctgcagATTGTCTGCTCATTTCTTGTTCGAGATATGGGTGTTGATTGGCGAATGGGA
EST: gi|13490716|gb|BG517480.1|BG517480
EST:     ACATGAGGGAGCTTTCAGCCACCGGTTACATGTCCAACCGTGGTCGTCAG                         ATTGTCTGCTCATTTCTTGTTCGAGATATGGGTGTTGATTGGCGAATGGGA
genomic: ACATGAGGGAGCTTTCAGCCACCGGTTACATGTCCAACCGTGGTCGTCAGgtatgcttcc ... ctatctgcagATTGTCTGCTCATTTCTTGTTCGAGATATGGGTGTTGATTGGCGAATGGGA
EST: gi|110957435|gb|EE177487.1|EE177487
EST:     ACATGAGGGAGCTTTCAGCCACCGGTTACATGTCCAACCGTGGTCGTCAG                         ATTGTCTGCTCATTTCTTGTTCGAGATATGGGTGTTGATTGGCGAATGGGA
genomic: ACATGAGGGAGCTTTCAGCCACCGGTTACATGTCCAACCGTGGTCGTCAGgtatgcttcc ... ctatctgcagATTGTCTGCTCATTTCTTGTTCGAGATATGGGTGTTGATTGGCGAATGGGA
EST: gi|148999289|gb|EE036219.2|EE036219
EST:     ACATGAGGGAGCTTTCAGCCACCGGTTACATGTCCAACCGTGGTCGTCAG                         ATTGTCTGCTCATTTCTTGTTCGAGATATGGGTGTTGATTGGCGAATGGGA
genomic: ACATGAGGGAGCTTTCAGCCACCGGTTACATGTCCAACCGTGGTCGTCAGgtatgcttcc ... ctatctgcagATTGTCTGCTCATTTCTTGTTCGAGATATGGGTGTTGATTGGCGAATGGGA
EST: gi|13149731|gb|BG320053.1|BG320053
EST:     ACATGAGGGAGCTTTCAGCCMCCGGTTACATGYCCAMCCGTGGTCGTCAG                         ATTGTCTGCTCATTTCTTGTTCGAGATATGGGTGTTGATTGGCGAATGGGA
genomic: ACATGAGGGAGCTTTCAGCCACCGGTTACATGTCCAACCGTGGTCGTCAGgtatgcttcc ... ctatctgcagATTGTCTGCTCATTTCTTGTTCGAGATATGGGTGTTGATTGGCGAATGGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cactgcagggcatctagtcccaattattcatctctcaatcactgcctatctgcagATTGTCTGCTCATTTCTTGTTCGAGATATGGGTGTTGATTGGCGAATGGGAGCCGAATGGTTCGAGACATGCTTATTGGATTATGACCCAGCTTCGAATT
                                            cctatct  CT-rich tract
                     aattattcat  TA-rich tract