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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTTCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgctttgttctatttcagtcgctgtttgtttcccattgctgcaatgttatctgttgcaaacctctgttaatattttgatttgaactttcgaaggctatctggtaatgtttgaccgtaatggtgcttgttttcatgcag

Basic information

species Zea mays
transcript GRMZM5G828229_T02
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G828229_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os08g05570.2 (Oryza sativa), 5'ss of exon 3
GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTTCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgctttgttctatttcagtcgctgtttgtttcccattgctgcaatgttatctgttgcaaacctctgttaatattttgatttgaactttcgaaggctatctggtaatgtttgaccgtaatggtgcttgttttcatgcag
|||||||||||| || ||||| ||||| || |||||||| || ||||||||||||||||| ||||||||||| |||||||||||||||||||||||||||||     |||    | ||  |||||  | |        |  |||  ||| |   | |   ||  | | |   ||||| |  ||  | ||  | |   | |   |                                         
GTATGTGATCGTGGGTGGAGGCAACGCGGCCGGTTACGCGGCGAGGACGTTCGTCGAGCACGGCATGGCTGATGGCCGCCTTTGCATCGTCTCCAAGGAGgt--tagtgcccaat-ctggttcaga-gtttcggaacacgaatttttgctactatgttgattagagaaccgggttaaaaggtttctgtgttcatgatatgaaaa-----------------------------------------
















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|211297775|gb|FL337585.1|FL337585
EST:     TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG                         CCAGTTYCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|211147215|gb|FL154652.1|FL154652
EST:     TCGTGGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|211157246|gb|FL334279.1|FL334279
EST:     TCGTGGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|78103956|gb|DV522374.1|DV522374
EST:     TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|211178644|gb|FL098422.1|FL098422
EST:     TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|6587631|gb|AW244949.1|AW244949
EST:     TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCGTCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|31353724|gb|CD438081.1|CD438081
EST:     TCGTGGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTCCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|211147220|gb|FL154657.1|FL154657
EST:     TCGTGGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|148931941|gb|EC875173.2|EC875173
EST:     TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|148933346|gb|EC877008.2|EC877008
EST:     TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|149075601|gb|EE164139.2|EE164139
EST:     TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|211147218|gb|FL154655.1|FL154655
EST:     TCGTGGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|211147219|gb|FL154656.1|FL154656
EST:     TCGTGGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|148959619|gb|EC905559.2|EC905559
EST:     TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|211178641|gb|FL098419.1|FL098419
EST:     TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|211178640|gb|FL098418.1|FL098418
EST:     TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|19436377|gb|BM952787.1|BM952787
EST:     TCGTGGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|211149413|gb|FL321993.1|FL321993
EST:     TCGTGGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|211467623|gb|FL333695.1|FL333695
EST:     TCGTGGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|148995891|gb|EE035131.2|EE035131
EST:     TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|211333832|gb|FL364099.1|FL364099
EST:     TCGTGGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|211147217|gb|FL154654.1|FL154654
EST:     TCGTGGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|213168062|gb|FM185604.1|FM185604
EST:     TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCGTCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|211178645|gb|FL098423.1|FL098423
EST:     TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|148990927|gb|EE032350.2|EE032350
EST:     TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|211147221|gb|FL154658.1|FL154658
EST:     TCGTGGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
EST: gi|7242278|gb|AW574464.1|AW574464
EST:     TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG                         CCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT
genomic: TCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgc ... tttcatgcagCCAGTTCCACCATACGAGCGGCCAGCCTTGACCAAAGGCTATCTTTTTCCT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTTCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAGgtatcgctgctttgttctatttcagtcgctgtttgtttcccattgctgcaatgttatctgttgcaaacctctgttaatattttgatttgaactttcgaaggctatctggtaatgtttgaccgtaatggtgcttgttttcatgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG