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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgtcctgcttttagtcactgtagtcgtttcatgtttggatttcatctgccattataacagtttgacattaaccaacctcctcattatattgtgaatcagAGGATGAACAGTTTGAAGCAGACAAGGAGCATGTCATAAAAGATTTTTTCCCTTTGAGTATGTCTGAGGTTGTAATTAGTCATT

Basic information

species Zea mays
transcript GRMZM2G351417_T03
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G351417_T01 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os07g39630.1 (Oryza sativa), 3'ss of exon 10
----ctgtcctgcttttagtcactgtagtcgtttcatgtttggatttcatctgccattataacagtttgacattaaccaacctcctcattatattgtgaatcagAGGATGAACAGTTTGAAGCAGACAAGGAGCATGTCATAAA--AGATTTTTTCCCTTTGA---------GTATGTCT-GAGGTTGTAATTAGTCATT----
    || |   |||||    ||||||||  |||      | |||||| || ||||  |||| || ||  |||| | | ||   |    ||||  | |  |||||||||||||||||| || |||||||| ||||| ||||||||  |||| | | | ||||           ||||  || | ||  |   || |||| |    
atatctattaagctttc--ccactgtagctgttcatcaatgggatttgatatgcctctatatcatttgcacatgagctaatagcagtgttatggttt--atcagAGGATGAACAGTTCGAGGCAGACAAAGAGCAGGTCATAAAGGAGATATCTGCACTTTAGTGTCCTTCTGTATACCTCGCGGAGGCTTTTGGTCAATGCGT
















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|60348049|gb|DN215022.1|DN215022
EST:     CAATAGAAACAAGCTACTTCGNNNNNNNGCTGGATTCAAGATTGACAAAG                         AGGATGAACAGTTTGAAGCAGACAAGGAGCATGTCATAAAAGAAATAT-CG
genomic: CAATAGAAACAAGCTACTTCGTTTTTTTGCTGGATTCAAGATTGACAAAGgtactatacc ... tgtgaatcagAGGATGAACAGTTTGAAGCAGACAAGGAGCATGTCATAAAAGATTTTTTC-
EST: gi|60338005|gb|DN204978.1|DN204978
EST:     CAATAGAAACAAGCTACTTCGNNNNNNNGCTGGATTCAAGATTGACAAAG                         AGGATGAACAGTTTGAAGCAGACAAGGAGCATGTCATAAAAGAAATAT-CG
genomic: CAATAGAAACAAGCTACTTCGTTTTTTTGCTGGATTCAAGATTGACAAAGgtactatacc ... tgtgaatcagAGGATGAACAGTTTGAAGCAGACAAGGAGCATGTCATAAAAGATTTTTTC-


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgccattataacagtttgacattaaccaacctcctcattatattgtgaatcagAGGATGAACAGTTTGAAGCAGACAAGGAGCATGTCATAAAAGATTTTTTCCCTTTGAGTATGTCTGAGGTTGTAATTAGTCATT
                     cattaac  putative branch site (score: 2)
                                      attatattgtgaat  TA-rich tract