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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcctcaccctcacgctttcctcgctcgcttacagacgccggtctcaccgccgaatttagaatcgctcgattgacggttatcgtctacgtacgtcatcgcattgtgtgtagATGGAGCCCGCGGACCCTGATTTCTACCGGATAGGATATGCGCGGATGATGCGCGCCTATGGGATCGAGTTCCTCGAAGGCCCCGACGGGATGGGCGTCT

Basic information

species Zea mays
transcript GRMZM5G807767_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G807767_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g50980.1 (Oryza sativa), 3'ss of exon 1
gtcctcaccctcacgctttcctcgctcgcttacagacgccggtctcaccgccgaatttagaatcgctcgattgacggttatcgtctacgtacgtcatcgcattgtgtgtagATGGAGCCCGCGGACCCTGATTTCTACCGGATAGGATATGCGCGGATGATGCGCGCCTATGGGATCGAGTTCCTCGAAGGCCCCGACGGGATGGGCGTCT
         ||||  || | | |||    || |   ||  | || || | |     ||    |||| ||  ||      ||     | | ||    |||  | ||||| |||||||||| || ||||| || |||||||||||||| || |||||||||||||| || || ||| | |||||| | ||||||||||| ||||||| |||||
------gtgctcaatctcttcccgcctagttgcttccgttgctcacatctc-----ttctgctcgcgcgcatg-----catgcatgatgaacaatgtcg--tcgtgtgcagATGGAGCCGGCCGACCCCGACTTCTACCGGATAGGGTACGCGCGGATGATGCGGGCGTACGGGGTTGAGTTCTTGGAAGGCCCCGATGGGATGGCCGTCT
















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|149101095|gb|EE187199.2|EE187199
EST:     CGCTCAGGCTGCTCGAGCCGCCGCAGGAGGACGACCCCTTCCCGCCCGAG                         ATGGAGCCCGCGGACCCTGATTTCTACCGGATAGGATATGCGCGGATGATG
genomic: CGCTCAGGCTGCTCGAGCCGCCGCAGGAGGACGACCCCTTCCCGCCCGAGgtcctcaccc ... ttgtgtgtagATGGAGCCCGCGGACCCTGATTTCTACCGGATAGGATATGCGCGGATGATG
EST: gi|91051727|gb|EB162145.1|EB162145
EST:     CGCTCAGGCTGCTCGAGCCGCCGCAGGAGGACGACCCCTTCCCGCCCGAG                         ATGGAGCCCGCGGACCCTGATTTCTACCGGATAGGATATGCGCGGATGATG
genomic: CGCTCAGGCTGCTCGAGCCGCCGCAGGAGGACGACCCCTTCCCGCCCGAGgtcctcaccc ... ttgtgtgtagATGGAGCCCGCGGACCCTGATTTCTACCGGATAGGATATGCGCGGATGATG
EST: gi|149029834|gb|EE286274.2|EE286274
EST:     CGCTCAGGCTGCTCGAGCCGCCGCAGGAGGACGACCCCTTCCCGCCCGAG                         ATGGAGCCCGCGGACCCTGATTTCTACCGGATAGGATATGCGCGGATGATG
genomic: CGCTCAGGCTGCTCGAGCCGCCGCAGGAGGACGACCCCTTCCCGCCCGAGgtcctcaccc ... ttgtgtgtagATGGAGCCCGCGGACCCTGATTTCTACCGGATAGGATATGCGCGGATGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttagaatcgctcgattgacggttatcgtctacgtacgtcatcgcattgtgtgtagATGGAGCCCGCGGACCCTGATTTCTACCGGATAGGATATGCGCGGATGATGCGCGCCTATGGGATCGAGTTCCTCGAAGGCCCCGACGGGATGGGCGTCT
            gattgac  putative branch site (score: 3)