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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggtaaatctttacagtttcatacaatagttttttttttctagaaacaatctttgatctttatttttactgcagACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTTCATCCCCAAGATAACAACATAATTGCAATTGGAATGGATGACTCAACCA

Basic information

species Zea mays
transcript GRMZM2G030422_T01
intron # 21
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G030422_T03 (Zea mays), 3'ss of exon 22
lower sequence: LOC_Os03g14980.1 (Oryza sativa), 3'ss of exon 21
gttggtaaatctttaca-gtttcatacaatagtt--ttttttttctagaaac-aatctttgatctttatttttactgcagACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTTCATCCCCAAGATAACAACATAATTGCAATTGGAATGGATGACTCAACCA
         |  ||||| ||||  | | || |||  | | || | ||||||   | |||| ||| | ||  | ||||||||| |||||||| ||||||||| | |||||||| ||||| |||||||| || ||||| |||||||||||||| || |||||||||||||||||||||||||
-------gttagttacaagtttatttctattgtttgtctcttatgtagaaattgaactttaatcat-atggtgactgcagACGATGACAACTTTTATGCCTCCGCCGCCGGCGGCAACGTTTCTTGCTTTCCATCCTCAAGATAACAACATTATAGCAATTGGAATGGATGACTCAACCA

upper sequence: GRMZM2G030422_T03 (Zea mays), 3'ss of exon 22
lower sequence: PP1S316_34V6.1 (Physcomitrella patens), 3'ss of exon 20
-------------------gttggtaaatctttacagtttcatacaatagttttttttttctagaaacaatct-----ttgatctttatttttactgcagACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTTCATCCCCAAGATAACAACATAATTGCAATTGGAATGGATGACTCAACCA
                    ||  | | | || | |  ||  |    | ||  |  ||    |       |||     |||   |    || |  | |||   ||||| || || |||||  |||| || ||||| ||||||||||| || ||||||||||| |||||||| ||||| || |||||||| || ||||| |
tattaaaaaaattgaagccattttttattattaaaaaattactctgctggtgatgcttgaacatggcagttctgacagttgccttcggattgtgattcagGTCATGACGACATTCATGCCGCCACCTCCAGCAGCTACTTTTCTTGCGTTCCATCCCCAAGACAACAACATCATTGCCATAGGAATGGAGGATTCAACAA

upper sequence: GRMZM2G030422_T03 (Zea mays), 3'ss of exon 22
lower sequence: PP1S99_260V6.1 (Physcomitrella patens), 3'ss of exon 20
----------------------------------------------------gttggtaaatctttacagtttcata----caatagttttttttttctagaaacaatctttgatctttatttttactgcagACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTTCATCCCCAAGATAACAACATAATTGCAATTGGAATGGATGACTCAACCA
                                                    | ||  ||   |||    |||  ||      | |||| |   ||| ||     |  ||||  |    ||||| ||| |||   ||||| || || |||||  |||| || ||||| |||||||||||||||||||| ||||| ||||| || ||||| || |||||||| || || || |
gtaaagtccgcgaatcatgaggagtctattttattctttgttctaataatatggtgagaagcgttttgtttttggtaattttgacagttgtcaatttttattctgacgcttttcttcggattttgact-cagGTCATGACGACATTCATGCCACCACCTCCAGCAGCTACTTTTCTTGCATTTCATCCACAAGACAACAATATCATTGCTATCGGAATGGAAGATTCGACAA

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|87156341|gb|DY401130.1|DY401130
EST:     TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAG                         ACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
genomic: TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAGgttggtaaat ... tttactgcagACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
EST: gi|211016182|gb|FL013386.1|FL013386
EST:     TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAG                         ACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
genomic: TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAGgttggtaaat ... tttactgcagACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
EST: gi|211016174|gb|FL013378.1|FL013378
EST:     TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAG                         ACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
genomic: TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAGgttggtaaat ... tttactgcagACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
EST: gi|211016178|gb|FL013382.1|FL013382
EST:     TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAG                         ACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
genomic: TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAGgttggtaaat ... tttactgcagACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
EST: gi|211018955|gb|FL013387.1|FL013387
EST:     TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAG                         ACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
genomic: TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAGgttggtaaat ... tttactgcagACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
EST: gi|211016172|gb|FL013376.1|FL013376
EST:     TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAG                         ACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
genomic: TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAGgttggtaaat ... tttactgcagACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
EST: gi|37422204|gb|CF648808.1|CF648808
EST:     TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAG                         ACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
genomic: TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAGgttggtaaat ... tttactgcagACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
EST: gi|211016173|gb|FL013377.1|FL013377
EST:     TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAG                         ACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
genomic: TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAGgttggtaaat ... tttactgcagACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
EST: gi|211016170|gb|FL013374.1|FL013374
EST:     TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAG                         ACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
genomic: TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAGgttggtaaat ... tttactgcagACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
EST: gi|211018956|gb|FL013388.1|FL013388
EST:     TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAG                         ACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
genomic: TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAGgttggtaaat ... tttactgcagACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
EST: gi|211016176|gb|FL013380.1|FL013380
EST:     TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAG                         ACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
genomic: TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAGgttggtaaat ... tttactgcagACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
EST: gi|31360482|gb|CD444839.1|CD444839
EST:     TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAG                         ACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
genomic: TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAGgttggtaaat ... tttactgcagACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
EST: gi|211016181|gb|FL013385.1|FL013385
EST:     TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAG                         ACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
genomic: TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAGgttggtaaat ... tttactgcagACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
EST: gi|211016177|gb|FL013381.1|FL013381
EST:     TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAG                         ACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
genomic: TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAGgttggtaaat ... tttactgcagACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
EST: gi|211016179|gb|FL013383.1|FL013383
EST:     TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAG                         ACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
genomic: TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAGgttggtaaat ... tttactgcagACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
EST: gi|22473365|gb|BU037845.1|BU037845
EST:     TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAG                         ACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
genomic: TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAGgttggtaaat ... tttactgcagACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
EST: gi|6095542|gb|AW120209.1|AW120209
EST:     TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAG                         ACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
genomic: TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAGgttggtaaat ... tttactgcagACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
EST: gi|76010934|gb|DT938104.1|DT938104
EST:     TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAG                         ACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT
genomic: TGTCTGCTTCTGGAGGAAAAATCTCTCTGTTCAACATGATGACTTTCAAGgttggtaaat ... tttactgcagACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catacaatagttttttttttctagaaacaatctttgatctttatttttactgcagACAATGACAACGTTTATGCCTGCACCGCCGGCAGCAACTTTTCTTGCATTTCATCCCCAAGATAACAACATAATTGCAATTGGAATGGATGACTCAACCA
                               ctttgat  putative branch site (score: 5)
                                     tctttatttttact  CT-rich tract
     aatagttttttttttc  TA-rich tract