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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATATTAAAGGCTTTTTAAGTGATGTTAAACCAGCACTTCTAAGTGCCCTGGATACTGAATATGAGAAAAATCCTTTTGAGgtatgctgtgttacagtcactgtttggaaaatgcttacttattgcgactttgtttttcatcaacatctgtttggttcaattattag

Basic information

species Zea mays
transcript GRMZM2G009849_T02
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G009849_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os01g60040.2 (Oryza sativa), 5'ss of exon 24
ATATTAAAGGCTTTTTAAGTGATGTTAAACCAGCACTTCTAAGTGCCCTGGATACTGAATATGAGAAAAATCCTTTTGAGgtatgctgtgttacagtcactgtttggaaaatgcttacttattgcgactttgtttttcatcaacatctgtttggttcaattattag
|||| ||||||||  |||||||||| |||||||| ||||| ||| | |||||| ||||||||||||||||||| |||||||| || | | |  | | || ||||||||||||   | ||  || ||| |||  ||||||   |||||  ||| |||||||||  ||
ATATCAAAGGCTTCCTAAGTGATGTCAAACCAGCGCTTCTCAGTACTCTGGATGCTGAATATGAGAAAAATCCATTTGAGgtttgttctat--ctggcattgtttggaaaataagt-ctatttacgagttt--ttttcactgacatcaattttgttcaattaacag

upper sequence: GRMZM2G009849_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA20G32430.2 (Glycine max), 5'ss of exon 24
ATATTAAAGGCTTTTTAAGTGATGTTAAACCAGCACTTCTAAGTGCCCTGGATACTGAATATGAGAAAAATCCTTTTGAGgtatgctgtgttaca----gtcactgtttggaaaatgcttacttattgcgactttgtttttcatcaacatctgtttggttcaattattag----------
| |||||||| ||| | | |||||| ||||| ||||| || |||||||||||||| || |||||||| ||||| ||||||||||| | ||||  |    || | |  |  | |     |||  || ||           |  | |  |  | |     |        |            
ACATTAAAGGGTTTCTTACTGATGTAAAACCTGCACTGCTCAGTGCCCTGGATACGGAGTATGAGAAGAATCCATTTGAGgtatgttatgtttgatgaggttagttctatgcagggttttaaatagtggtgtagcagagtggagcggctccggcccactatgggggcttctgtagcggag

upper sequence: GRMZM2G009849_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA10G35140.1 (Glycine max), 5'ss of exon 26
--------------------ATATTAAAGGCTTTTTAAGTGATGTTAAACCAGCACTTCTAAGTGCCCTGGATACTGAATATGAGAAAAATCCTTTTGAGgtatgctgtgtt-----acagtcactgtttggaaaatgcttact----tattgcgactttgtttttcatca-----acatctgtttggttcaattattag
                    | |||||||| ||| | | |||||| || || ||||| || |||||||||||||| || |||||||| ||||| ||||||||||| | ||||     |   |   | | || |   |  | | |    |  |    |  |||     | ||     ||  |||   | | |      |  
TAAGGTTTTTCTCCTTGCAGACATTAAAGGGTTTCTTACTGATGTAAAGCCTGCACTGCTCAGTGCCCTGGATACAGAGTATGAGAAGAATCCATTTGAGgtatgttatgtttgatgaggtttgttctatgcagggttttaaatagcatgctatagcagtgtagcagagcagagtgacccctgcccgctacgggggctgc

upper sequence: GRMZM2G009849_T01 (Zea mays), 5'ss of exon 6
lower sequence: AT2G35630.1 (Arabidopsis thaliana), 5'ss of exon 24
ATATTAAAGGCTTTTTAAGTGATGTTAAACCAGCACTTCTAAGTGCCCTGGATACTGAATATGAGAAAAATCCTTTTGAGgtatgctgtgttacagtcactgtttggaaaatgcttacttattgcgactttgtttttcatcaacatctgtttggttcaattattag
| |||||||| ||| | | |||||| ||||| ||||| |||||||| || || || |||||||||||||| ||||| ||||||          ||||   ||| ||||      | | || |   |   ||||||||| |     |   | |  |    | || ||
ACATTAAAGGGTTTCTTAATGATGTCAAACCTGCACTACTAAGTGCACTTGACACCGAATATGAGAAAAACCCTTTCGAGgta----------cagt---tgtgtggattgccttgatttgtctagttcttgtttttc-ttgctgtacttatattatgttcatcag

upper sequence: GRMZM2G009849_T01 (Zea mays), 5'ss of exon 6
lower sequence: EFJ15655 (Selaginella moellendorffii), 5'ss of exon 23
ATATTAAAGGCTTTTTAAGTGATGTTAAACCAGCACTTCTAAGTGCCCTGGATACTGAATATGAGAAAAATCCTTTTGAGgtatgctgtgttacagtcactgtttggaaaatgcttacttattgcgactttgtttttcatcaacatctgtttggttcaattattag
   | ||    ||||| |  ||||| ||||| || |||| ||||||  ||||||| ||||||||||||||||| | |||||||        |||||  ||  ||    |  |  | | | ||  ||    |||||                               
GCTTGAAGAATTTTTTGACGGATGTGAAACCTGCTCTTCAAAGTGCTTTGGATACCGAATATGAGAAAAATCCCTATGAGgtag-------tacag--acccttcacgatttcttcattgatgtcgtaaatgtttcag----------------------------

upper sequence: GRMZM2G009849_T01 (Zea mays), 5'ss of exon 6
lower sequence: EFJ11209 (Selaginella moellendorffii), 5'ss of exon 23
ATATTAAAGGCTTTTTAAGTGATGTTAAACCAGCACTTCTAAGTGCCCTGGATACTGAATATGAGAAAAATCCTTTTGAGgtatgctgtgttacagtcactgtttggaaaatgcttacttattgcgactttgtttttcatcaacatctgtttggttcaattattag
   | ||    ||||| |  ||||| ||||| || |||| ||||||  ||||||| ||||||||||||||||| | |||||||        |||||  ||  ||    |  |  | | |  |  ||    |||||                               
GCTTGAAGAATTTTTTGACGGATGTGAAACCTGCTCTTCAAAGTGCTTTGGATACCGAATATGAGAAAAATCCCTATGAGgtag-------tacag--acccttcacgatttcttcattggtgtcgtaaatgtttcag----------------------------

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|19350672|gb|BM895204.1|BM895204
EST:     CAGCACTTCTAAGTGCCCTGGATACTGAATATGAGAAAAATCCTTTTGAG                         GGTGCTGCTGCTGCTCCAAAGAGAACAGTTCGAGTTCTGGATACTGCATCT
genomic: CAGCACTTCTAAGTGCCCTGGATACTGAATATGAGAAAAATCCTTTTGAGgtatgctgtg ... caattattagGGTGCTGCTGCTGCTCCAAAGAGAACAGTTCGAGTTCTGGATACTGCATCT