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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATCCTGTACGAAGTTTTCCCCATGTCGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggtttacgcctctccatttcctatacaaaaaaaaaagcacttctgctccctcgtcatagaatagaactgcttgttcacttctgcttggtttgggtacctttgatgcattggcactgcatgcag

Basic information

species Zea mays
transcript GRMZM5G836250_T03
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G836250_T03 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os01g64660.4 (Oryza sativa), 5'ss of exon 9
TATCCTGTACGAAGTTTTCCCCATGTCGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggtttacgcctctccatttcctatacaaaaaaaaaagcacttctgctccctcgtcatagaatagaactgcttgttcacttctgcttggtttgggtacctttgatgcattggcactgcatgcag
| | ||||| ||||||||||||||||| ||||| ||||||||||| ||||||||||| |||||||||||||||||||||    || |  |  || ||||| | |   |  |||| ||||    || |   |  | |     | ||  | ||||    ||  | | | |||         ||| | |||||||| ||||     
TGTTCTGTATGAAGTTTTCCCCATGTCATTCCTGATGGAGCAGGCTGGAGGCCAGTCTTTCACAGGCAAAGAACGGgtacttatttcttcattc-atttcatct-tgattaaaacagcatgcatgtttagt-attagcatcttgagtt-cttgaatcctgatacattgttcaaac-ttgttgctacattggcaatgcag----

upper sequence: GRMZM5G836250_T03 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA16G28310.1 (Glycine max), 5'ss of exon 12
TATCCTGTACGAAGTTTTCCCCATGTCGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggtttacgcctctccatttcctatacaaaaaaaaaagcacttctgctccctcgtcatagaa--tagaactgcttgttcacttctgcttggttt---gggtacctttgatgcattggcactgcatgcag-------------
| ||||||| ||||| ||||| ||||| ||| | ||||| ||||||||||| ||||| ||||| ||||| |||||||||   |||||   |||   |  |  | ||  | ||     | ||| |  | | |     | |||  | |||   |   | ||     |  | ||||     | | | ||  || ||         |                  
TGTCCTGTATGAAGTCTTCCCAATGTCATTCTTGATGGAACAGGCAGGAGGACAGTCTTTCACGGGCAAGGAACGGgta--atttacatttcttt-taactgacactgacaatttttctcttatttttctttccacttgaaattggaatcacccatacatgctggtatagtttcaaaagcatcatttgtgaatcaaattgataaatcttctctgttatcag
















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|78105896|gb|DV524314.1|DV524314
EST:     CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGG                         GCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
genomic: CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggttta ... ctgcatgcagGCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
EST: gi|76282214|gb|DV021782.1|DV021782
EST:     CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGG                         GCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
genomic: CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggttta ... ctgcatgcagGCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
EST: gi|89759141|gb|DY688054.1|DY688054
EST:     CGTTCTTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGG                         GCTCTTGATCTGATCCCAACCAAGATCCACGCCAGGTCCCCGATATTCCTC
genomic: CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggttta ... ctgcatgcagGCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
EST: gi|93284534|gb|EB676798.1|EB676798
EST:     CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGG                         GCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
genomic: CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggttta ... ctgcatgcagGCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
EST: gi|83279121|gb|DV943129.1|DV943129
EST:     CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGG                         GCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
genomic: CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggttta ... ctgcatgcagGCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
EST: gi|50324976|gb|CO520102.1|CO520102
EST:     CGTTCCTAATGGAGCAGGCAGGAGGGCAGTCCTTCACAGGCAAAGAACGG                         GCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
genomic: CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggttta ... ctgcatgcagGCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
EST: gi|71768088|gb|DR966025.1|DR966025
EST:     CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGG                         GCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
genomic: CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggttta ... ctgcatgcagGCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
EST: gi|86471231|gb|DY237601.1|DY237601
EST:     CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGG                         GCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
genomic: CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggttta ... ctgcatgcagGCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
EST: gi|50331044|gb|CO526170.1|CO526170
EST:     CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGG                         GCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
genomic: CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggttta ... ctgcatgcagGCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
EST: gi|149085229|gb|EE174736.2|EE174736
EST:     CGTTCTTAATGGAGCAGGCAGGAGGCCAGTCCTTCCCAGGCAAAGAACGG                         GCTCTTGATTTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
genomic: CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggttta ... ctgcatgcagGCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
EST: gi|78113531|gb|DV531922.1|DV531922
EST:     CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGG                         GCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
genomic: CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggttta ... ctgcatgcagGCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
EST: gi|148929799|gb|EE285436.2|EE285436
EST:     CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGG                         GCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
genomic: CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggttta ... ctgcatgcagGCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
EST: gi|32925653|gb|CF030465.1|CF030465
EST:     CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGG                         GCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
genomic: CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggttta ... ctgcatgcagGCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
EST: gi|88752752|gb|DY536893.1|DY536893
EST:     CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGG                         GCTCTTGATTTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
genomic: CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggttta ... ctgcatgcagGCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
EST: gi|71770842|gb|DR968779.1|DR968779
EST:     CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGG                         GCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
genomic: CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggttta ... ctgcatgcagGCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
EST: gi|149088445|gb|EE177548.2|EE177548
EST:     CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGG                         GCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
genomic: CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggttta ... ctgcatgcagGCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
EST: gi|86473014|gb|DY239384.1|DY239384
EST:     CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGG                         GCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
genomic: CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggttta ... ctgcatgcagGCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
EST: gi|149064612|gb|EE286483.2|EE286483
EST:     CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGG                         GCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
genomic: CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggttta ... ctgcatgcagGCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
EST: gi|71317307|gb|DR795338.1|DR795338
EST:     CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGG                         GCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
genomic: CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggttta ... ctgcatgcagGCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
EST: gi|110201016|gb|EC882913.1|EC882913
EST:     CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGG                         GCTCTTGATTTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
genomic: CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggttta ... ctgcatgcagGCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
EST: gi|94476278|gb|EB705236.1|EB705236
EST:     CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGG                         GCTCTTGATTTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
genomic: CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggttta ... ctgcatgcagGCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
EST: gi|50332538|gb|CO527664.1|CO527664
EST:     CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGG                         GCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
genomic: CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggttta ... ctgcatgcagGCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
EST: gi|149099889|gb|EE185942.2|EE185942
EST:     CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCCCAGGCAAAGAACGG                         GCTCTTGATTTGATCCCAACCAAGATCCCCGACAGGTCCCCGATATTCCTC
genomic: CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggttta ... ctgcatgcagGCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
EST: gi|71314864|gb|DR794057.1|DR794057
EST:     CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGG                         GCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC
genomic: CGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggttta ... ctgcatgcagGCTCTTGATCTGATCCCAACCAAGATCCACGACAGGTCCCCGATATTCCTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TATCCTGTACGAAGTTTTCCCCATGTCGTTCCTAATGGAGCAGGCAGGAGGCCAGTCCTTCACAGGCAAAGAACGGgtagggtttacgcctctccatttcctatacaaaaaaaaaagcacttctgctccctcgtcatagaatagaactgcttgttcacttctgcttggtttgggtacctttgatgcattggcactgcatgcag

- - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC