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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACAAAAGTGATTTCTGCTGATGTGAGGCGCAAGACATTGCTTACAGGCACTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGGgtattggatctatttgaacatctctttatgttttgttttaaattcaattcttcatgaacctgattacctgctatcctatattgaggaaaaacctagcacatgatgatcaatttatgtgtttttctaaatttcatttatttacataatatag

Basic information

species Zea mays
transcript GRMZM2G320307_T01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G320307_T01 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os02g47790.1 (Oryza sativa), 5'ss of exon 4
AACAAAAGTGATTTCTGCTGATGTGAGGCGCAAGACATTGCTTACAGGCACTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGGgtattggatctatttgaacatc------------------tctttatgttttgttttaaattcaattcttcatgaacctgattacct----gctatcctatattgaggaaaaacctagcacatgatgatcaatttatgtgtttttc--taaatttcatttatttacataatatag---
||| |  |||||||||||||||||| |||  |||||||||||||||  || ||| ||||| |||||||| |||||||| ||  |||| || |||||||||||||     | |    || | |                  || |  |||     || |  |   |||  | |   | || || |         | |||  |||   |       || | |||        |||  || | ||| |    |||||| || |  ||   |  |   |   
AACGAGGGTGATTTCTGCTGATGTGCGGCAGAAGACATTGCTTACATCCAGTGGGGAAACCATCAGCTATAAAACTCTTATCGTTGCCACGGGTGCTCGGgtatgcacccaaaaaaaaaaacataaaaaaaaaatctggttcatcctgtccatcttcagttctgatttctgaacgaacttatcattcttggattctccagtatcttgagttttactggaacactcaatctaatagatatatttcttgacaaatttgatctggttctctgttgacgtag

upper sequence: GRMZM2G320307_T01 (Zea mays), 5'ss of exon 4
lower sequence: Vv14s0066g01100.t01 (Vitis vinifera), 5'ss of exon 4
AACAAAAGTGATTTCTGCTGATGTGAGGCGCAAGACATTGCTTACAGGCACTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGGgtattggatctatttgaacatctctttatgttttgttttaaattcaattcttcatgaacctgattacctgctatcctatattgaggaaaaacctagcacatgatgatcaatttatgtgtttttctaaatttcatttatttacataatatag
 ||   ||| |  ||||||||||||||||| |||||  | || ||||  ||||| ||||| || || ||||| | ||| || ||||| |||||||||||||||||| |   |  |||   ||| |  |   |   ||    |     |  | ||| |    |   |  |  | ||   |||   ||  || ||    |   ||| ||  ||||                                      
TACTCGAGTCAAATCTGCTGATGTGAGGCGGAAGACGCTACTAACAGCAACTGGAGAAACAATAAGTTACAAGATTCTCATCATTGCAACAGGTGCTCGGgtattgaa---aactga---tctttcaacagtcaatt----accttgtagtgcatcagataggcaagatcttttcgcttat---ggttaatccctataagagat-atggatttt-------------------------------------
















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|78112090|gb|DV530486.1|DV530486
EST:     CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGG                         GCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
genomic: CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGGgtattggatc ... cataatatagGCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
EST: gi|211343496|gb|FL158171.1|FL158171
EST:     CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGG                         GCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
genomic: CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGGgtattggatc ... cataatatagGCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
EST: gi|74239090|gb|DT647004.1|DT647004
EST:     CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGG                         GCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
genomic: CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGGgtattggatc ... cataatatagGCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
EST: gi|76282291|gb|DV021859.1|DV021859
EST:     CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGG                         GCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
genomic: CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGGgtattggatc ... cataatatagGCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
EST: gi|211343497|gb|FL158172.1|FL158172
EST:     CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGG                         GCTTTGAAGCTGC
genomic: CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGGgtattggatc ... cataatatagGCTTTGAAGCTGC
EST: gi|76294433|gb|DV034001.1|DV034001
EST:     CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGG                         GCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
genomic: CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGGgtattggatc ... cataatatagGCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
EST: gi|149014462|gb|EE044078.2|EE044078
EST:     CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGG                         GCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
genomic: CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGGgtattggatc ... cataatatagGCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
EST: gi|93282877|gb|EB675141.1|EB675141
EST:     CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGG                         GCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
genomic: CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGGgtattggatc ... cataatatagGCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
EST: gi|101396936|gb|EB820393.1|EB820393
EST:     CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGG                         GCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
genomic: CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGGgtattggatc ... cataatatagGCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
EST: gi|50324177|gb|CO519303.1|CO519303
EST:     CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGG                         GCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
genomic: CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGGgtattggatc ... cataatatagGCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
EST: gi|93014386|gb|EB639906.1|EB639906
EST:     CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGG                         GCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
genomic: CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGGgtattggatc ... cataatatagGCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
EST: gi|211341114|gb|FL158167.1|FL158167
EST:     CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGG                         GCTTTGAAGCTGCAAG
genomic: CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGGgtattggatc ... cataatatagGCTTTGAAGCTGCAAG
EST: gi|74236111|gb|DT644025.1|DT644025
EST:     CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGG                         GCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
genomic: CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGGgtattggatc ... cataatatagGCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
EST: gi|13198566|gb|BG354385.1|BG354385
EST:     CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGG                         GCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
genomic: CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGGgtattggatc ... cataatatagGCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
EST: gi|148957305|gb|EC903342.2|EC903342
EST:     CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGG                         GCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
genomic: CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGGgtattggatc ... cataatatagGCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
EST: gi|87155794|gb|DY400583.1|DY400583
EST:     CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGG                         GCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
genomic: CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGGgtattggatc ... cataatatagGCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
EST: gi|148969919|gb|EE020823.2|EE020823
EST:     CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGG                         GCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
genomic: CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGGgtattggatc ... cataatatagGCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
EST: gi|76015963|gb|DT943133.1|DT943133
EST:     CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGG                         GCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
genomic: CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGGgtattggatc ... cataatatagGCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
EST: gi|31360581|gb|CD444938.1|CD444938
EST:     CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGG                         GCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
genomic: CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGGgtattggatc ... cataatatagGCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
EST: gi|74233733|gb|DT641647.1|DT641647
EST:     CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGG                         GCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
genomic: CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGGgtattggatc ... cataatatagGCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
EST: gi|148949714|gb|EC895192.2|EC895192
EST:     CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGG                         GCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA
genomic: CTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGGgtattggatc ... cataatatagGCTTTGAAGCTGCAAGAATTTGGAATACAAGGTTCAGATGCTTCAAACATA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACAAAAGTGATTTCTGCTGATGTGAGGCGCAAGACATTGCTTACAGGCACTGGTGAAACTATCAGCTACAAAACTCTAATTATTGCGACAGGTGCTCGGgtattggatctatttgaacatctctttatgttttgttttaaattcaattcttcatgaacctgattacctgctatcctatattgaggaaaaacctagcacatgatgatcaatttatgtgtttttctaaatttcatttatttacataatatag

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