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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTTCTGACGGTGGCGTCTCGCTTGATTGCGCGCAGGTACTTCCTGAGAAAGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgatcctttctcctctttctatggtatatgaataggtgtggatcgatagataattctcgtttgtgttgccattgctgatgacatgctgccaagt...

Basic information

species Zea mays
transcript GRMZM2G113720_T02
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G113720_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os05g49030.1 (Oryza sativa), 5'ss of exon 3
ATTTCTGACGGTGGCGTCTCGCTTGATTGCGCGCAGGTACTTCCTGAGAAAGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgatcctttctc-ctctttctatggtatatgaataggtgtggatcgatagata-attctcgtttgtgttgccattgctgatgacatgctgccaagt
                                    |||||||||||| ||||| ||||||||||||||||||||||| |||||||| |||||||||||||||   |     || ||| || |   | ||         |   || | ||| || |  |     |||||   | | |    ||||      || |   |   
------------------------------------GTACTTCCTGAGGAAGCTGAAGAAGGTGAAGAAGAGCAATGGACAGATGCTCGCCATCAACGAGgtaccgctcaatttgctcactttcaatttgactgccttgtccatgcgtatcaattgccatgacgtcgttacagatccgcaggctgccactttgatattag--
















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|31910901|gb|CD651655.1|CD651655
EST:     AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|28873305|gb|CB329314.1|CB329314
EST:     AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|5871159|gb|AW017630.1|AW017630
EST:     AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|15427099|gb|BI542921.1|BI542921
EST:     AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|15005306|gb|BI325373.1|BI325373
EST:     GAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: GAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|5439248|gb|AI820169.1|AI820169
EST:     AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|211054602|gb|FL410438.1|FL410438
EST:     AGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGG-TGCGC
genomic: AGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|22542594|gb|BU093032.1|BU093032
EST:     AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|29544054|gb|CB604434.1|CB604434
EST:     AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|149084251|gb|EE173677.2|EE173677
EST:     AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCCCCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|4874324|gb|AI673844.1|AI673844
EST:     AAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|15660871|gb|BI698242.1|BI698242
EST:     AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|5108113|gb|AI739826.1|AI739826
EST:     AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|78027004|gb|DV495391.1|DV495391
EST:     AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|93017417|gb|EB642937.1|EB642937
EST:     AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|4886115|gb|AI677235.1|AI677235
EST:     AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|5456197|gb|AI833887.1|AI833887
EST:     AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|91874444|gb|EB404401.1|EB404401
EST:     GAAGAGCAATGGCCAGATGCTTGCCTTCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: GAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|8516662|gb|BE123387.1|BE123387
EST:     AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATTTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|211031697|gb|FL368617.1|FL368617
EST:     AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCT-GSTGCGC
genomic: AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|94473461|gb|EB702419.1|EB702419
EST:     AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|5739743|gb|AI947319.1|AI947319
EST:     AGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|15427086|gb|BI542908.1|BI542908
EST:     AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|14717737|gb|BI245387.1|BI245387
EST:     AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|60341116|gb|DN208089.1|DN208089
EST:     AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|31558351|gb|CD527563.1|CD527563
EST:     AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|8516379|gb|BE123105.1|BE123105
EST:     AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCCCCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|29947384|gb|CB816628.1|CB816628
EST:     GCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: GCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|5439354|gb|AI820275.1|AI820275
EST:     AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|4621651|gb|AI612484.1|AI612484
EST:     AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|60355041|gb|DN222014.1|DN222014
EST:     AAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
EST: gi|31998190|gb|CD661971.1|CD661971
EST:     AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAG                         ATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC
genomic: AGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgat ... tgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGC

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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTTCTGACGGTGGCGTCTCGCTTGATTGCGCGCAGGTACTTCCTGAGAAAGCTCAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTTGCCATCAACGAGgtataccgatcctttctcctctttctatggtatatgaataggtgtggatcgatagataattctcgtttgtgttgccattgctgatgacatgctgccaagt

- - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG