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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgccatctttgcttgtcatcatttttaattatagtattattgcaagttctctttctcaacaggaattgcatcttaatacataaaaactattttttggatatgctgtcatttcattcttttacgcacaaaatgcacaataccaatttaacaccatttatgtgtccattgcttgtattctagGTGAATGAGGCTAAGAATGTGCTCAAGGTATGTGATTTTGGCAACGCTATGCTTGCTGGTATGAATGAAGTTACGCCTTATCTTGTCAGCCGTTTCTATC

Basic information

species Zea mays
transcript GRMZM2G147811_T02
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G147811_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os12g44330.2 (Oryza sativa), 3'ss of exon 8
gtacgccatctttgcttgtcatcatttttaattatagtattattgcaagttctctttctcaacaggaattgcatcttaatacataaaaactattttttggatatgctgtcatttcattcttttacgcacaaaatgcacaataccaat--ttaacaccatttatgtgtccattgcttg-tattct--agGTGAATGAGGCTAAGAATGTGCTCAAGGTATGTGATTTTGGCAACGCTATGCTTGCTGGTATGAATGAAGTTACGCCTTATCTTGTCAGCCGTTTCTATC
                                                                                   | || |    |  ||| ||||  | | ||||     | |||   || | |  ||   || | |   | |||| | ||| |   |   |  |||| ||||||  ||||||||||||||||||||||||| ||| | |||||||||||||| || ||||||||||| ||||| || ||||| ||||||||||| |||||||||||||
----------------------------------------------------------------------------------ttgaaca----tgcttgaatat--ttttatttatgcttgttatatactacagtcattgtatctacagtaaacatcctttttaattttttgtcttgatattctttagGTGAATGAGGCTAAGAATGTGCTGAAGCTCTGTGATTTTGGCAATGCAATGCTTGCTGGAATGAACGAGGTTACACCTTATCTTGTGAGCCGTTTCTATC

upper sequence: GRMZM2G147811_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA10G42220.1 (Glycine max), 3'ss of exon 13
gtacgccatctttgcttgtcatcatttttaattatagtattattgcaagttctctttctcaacaggaattgcatcttaatacataaaaactattttttggatatgctgtcatttcattcttttacgcacaaaatgcacaataccaatttaacaccatttatgtgtcca-ttgcttgtatt--ctagGTGAATGAGGCTAAGAATGTGCTCAAGGTATGTGATTTTGGCAACGCTATGCTTGCTGGTATGAATGAAGTTACGCCTTATCTTGTCAGCCGTTTCTATC
                                                                         | |   || || |    | | ||| |  | |    |    |  || | |||    ||| | |   |||| | |||    | ||||||  | | || || | | | ||    |||| |||||| |||| |||||  | ||| | ||||| |||||||| || ||| |||||||||  ||||||||||| || |||||||| || ||||| ||||
------------------------------------------------------------------------gtatgcctaaattactgttgtgtttagattgtttcttttcctagttttgttaatttcaagaaga--aatatctattatctaacatttagttcttcaatttcctcttttgataagGTAAATGAGTCTAAAAATGTTTTGAAGCTTTGTGACTTTGGCAATGCCATGTTTGCTGGTAAAAATGAAGTTACACCATATCTTGTGAGTCGTTTTTATC

upper sequence: GRMZM2G147811_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA20G24820.2 (Glycine max), 3'ss of exon 10
gtacgccatctttgcttgtcatcatttttaattatagtattattgcaagttctctttctcaacaggaattgcatcttaatacataaaa-actattttttggatatgctgtcatttcattcttttacgcacaaaatgcac-----aataccaatttaacaccatttatgtgtcca-ttgcttgtatt--ctagGTGAATGAGGCTAAGAATGTGCTCAAGGTATGTGATTTTGGCAACGCTATGCTTGCTGGTATGAATGAAGTTACGCCTTATCTTGTCAGCCGTTTCTATC
                                                                              || | ||||| ||| || | |  | ||  | || |||||   ||||       || | ||      |||| | ||||   | ||||||  | | || || | | | ||  | |||| |||||||||||||||||  | ||| | ||||| ||||| || || ||| |||||||||  ||||||||||| || |||||||| || ||||| ||||
----------------------------------------------------------------------------gtatgcctaaaatactgttgtgtttagattgtttcttttcaaaattttgtttgttaatttcaagaagaaatatctattttctaacatttagttcttcaatttcctcttttgacaagGTAAATGAGGCTAAGAATGTTTTGAAGCTTTGTGACTTTGGTAATGCCATGTTTGCTGGTAAAAATGAAGTTACACCATATCTTGTGAGTCGTTTTTATC

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|67021773|gb|CO450522.1|CO450522
EST:     TGAAGAACTGCAAAGTTTTGCACTGTGATATAAAACCAGATAATATGCTG                         GTGAATGAGGCTAANAATGTGCTCAAGGTATGTGATTNTGGGCA-CGCTAT
genomic: TGAAGAACTGCAAAGTTTTGCACTGTGATATAAAACCAGATAATATGCTGgtacgccatc ... tgtattctagGTGAATGAGGCTAAGAATGTGCTCAAGGTATGTGATTTTGG-CAACGCTAT
EST: gi|32945651|gb|CF050470.1|CF050470
EST:     TGAAGAACTGCAAAGTTTTGCACTGTGATATAAAACCAGATAATATGCTG                         GTGAATGAGGCTAAGAATGTGCTCAAGGTATGTGATTTTGGCAACGCTATG
genomic: TGAAGAACTGCAAAGTTTTGCACTGTGATATAAAACCAGATAATATGCTGgtacgccatc ... tgtattctagGTGAATGAGGCTAAGAATGTGCTCAAGGTATGTGATTTTGGCAACGCTATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaaatgcacaataccaatttaacaccatttatgtgtccattgcttgtattctagGTGAATGAGGCTAAGAATGTGCTCAAGGTATGTGATTTTGGCAACGCTATGCTTGCTGGTATGAATGAAGTTACGCCTTATCTTGTCAGCCGTTTCTATC
                 atttaac  putative branch site (score: 3)
                aatttaaca  TA-rich tract