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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAATAAAAAGTGGAAAGAAGGGTTCCATGTAACATCTATGGCCACTGCTGGAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatgattgcttgaccacgcaggcattatttatgctgtgtccttgcgtaaccatattcctctgaattgtaccaactgaggcctgagtatttaaccaaacaacaacaacaaaaaaactgttgtcag

Basic information

species Zea mays
transcript GRMZM2G164265_T02
intron # 15
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G164265_T02 (Zea mays), 5'ss of exon 15
lower sequence: LOC_Os07g07560.2 (Oryza sativa), 5'ss of exon 15
CAATAAAAAGTGGAAAGAAGGGTTCCATGTAACATCTATGGCCACTGCTGGAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatgattgcttgaccacgcaggcattatttatgctgtgtccttgcgtaaccatattcctctga--attgtaccaactgaggcctga-gtattta---accaaacaacaacaacaaaaaaactgttgtcag
||||||||||||||||||||| || ||||| |||||||||||||| ||||||||||||||||| ||||||||||||||||||||||| |  |||   |||||||| || |||||||||||    ||    |||| |  |       |||   |   |||||||| |||  |||  |  |  |   |    |  ||| ||   |  || | |           |  |  || | ||
CAATAAAAAGTGGAAAGAAGGTTTTCATGTGACATCTATGGCCACCGCTGGAAATCGCTGGGGTGTAGTTATGTCAAGGAACTCAGGTTACTCTGAACAGgttagaataattgcttgacc---tagttcatattcagtccacaaatttggcaatttatattcctgtgagcattccattatttactgtagaatatatctacttatgaagctaacctttttctcatgccctttttag

upper sequence: GRMZM2G164265_T02 (Zea mays), 5'ss of exon 15
lower sequence: GLYMA16G04580.1 (Glycine max), 5'ss of exon 15
CAATAAAAAGTGGAAAGAAGGGTTCCATGTAACATCTATGGCCACTGCTGGAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatgattgcttgaccacgcaggcattatttatgctgtgtccttgcgtaaccatattcctctgaattgtaccaactgaggcctgagtatttaaccaaacaacaacaacaaaaaaactgttgtcag
 || || |||||||||||||| |||||||| || || ||| | |||||||| | ||||||||| || |||||||| |||||  | |||| ||||  ||||||    || ||   || |||         | |||| || | | |   ||  |    | | ||| |    ||| |     |   |  |||  ||  ||                                
AAACAAGAAGTGGAAAGAAGGATTCCATGTTACCTCAATGACTACTGCTGGCAGTCGCTGGGGTGTTGTTATGTCCAGGAATGCTGGGTATTCTGATCAGgtatctat-atcttttcacc-------tttgatttttggt-tatgtatgaatttttaaaatccacattgttgaatttgtttttgtttgatgatgcaag-------------------------------

upper sequence: GRMZM2G164265_T02 (Zea mays), 5'ss of exon 15
lower sequence: AT3G03940.1 (Arabidopsis thaliana), 5'ss of exon 15
CAATAAAAAGTGGAAAGAAGGGTTCCATGTAACATCTATGGCCACTGCTGGAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatgattgcttgaccacgcaggcattatttatgctgtgtccttgcgtaaccatattcctctgaattgtaccaactgaggcctgagtatttaaccaaacaacaacaacaaaaaaactgttgtcag
 |||||||||||||||||||| || ||||||||||| ||| |||| ||||| | ||| ||||| ||||| ||||| ||||||||||| |  |||   ||||||     |||  ||| |||    |||||||   |   || | || |||  |     |    | ||  | ||||  ||| ||||  |  ||  |  |    | |                         
AAATAAAAAGTGGAAAGAAGGTTTTCATGTAACATCCATGACCACCGCTGGGAGTCGTTGGGGTGTAGTAATGTCCAGGAACTCAGGCTACTCTGAACAGgtt---ccgatctctttacctg--aggcatt---tcaacttt-tctttgtttcctttttgagcactataatgtattaac-gaggtttatgtggtgtatattatag------------------------

upper sequence: GRMZM2G164265_T02 (Zea mays), 5'ss of exon 15
lower sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 15
CAATAAAAAGTGGAAAGAAGGGTTCCATGTAACATCTATGGCCACTGCTGGAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatgattgcttgaccacgcaggcattatttatgctgtgtccttgcgtaaccatattcctctgaattgtaccaactgaggcctgagtatttaaccaaacaacaacaacaaaaaaactgttgtcag
 ||||| |||||||||||||| |||||||| ||||||||| | |||||||||| ||||||||| || || ||||| |||||||| || | | ||  ||||||||  || | |  || |  |        || | |    |  ||   ||  | | || ||| || | |   ||| |   |      |     |||   |           | | |||            
TAATAAGAAGTGGAAAGAAGGTTTCCATGTCACATCTATGACTACTGCTGGAAGTCGCTGGGGGGTGGTAATGTCCAGGAACTCTGGATATACTGATCAGgttacaattaatattttattat-------ttttctcactttagtaaatgtatgaaca-atttcttttagaagtagctgatatttatttcccctttttactggtgttgctgatacaaag-----------

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|5915380|gb|AW053021.1|AW053021
EST:     GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAG                         GTTGTAGAAGTTGGACTTCCTGTACCCTAGCGAAGGCATCCATCGGCGATG
genomic: GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatga ... ctgttgtcagGTTGTAGA-GTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATG
EST: gi|149102515|gb|EE287878.2|EE287878
EST:     GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAG                         GTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
genomic: GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatga ... ctgttgtcagGTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
EST: gi|149097990|gb|EE183935.2|EE183935
EST:     GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAG                         GTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
genomic: GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatga ... ctgttgtcagGTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
EST: gi|148974692|gb|EE025499.2|EE025499
EST:     GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAG                         GTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
genomic: GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatga ... ctgttgtcagGTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
EST: gi|71430774|gb|DR811824.1|DR811824
EST:     GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAG                         GTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
genomic: GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatga ... ctgttgtcagGTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
EST: gi|149031683|gb|EE154868.2|EE154868
EST:     GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAG                         GTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
genomic: GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatga ... ctgttgtcagGTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
EST: gi|78113586|gb|DV531977.1|DV531977
EST:     GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAG                         GTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
genomic: GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatga ... ctgttgtcagGTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
EST: gi|149098314|gb|EE184284.2|EE184284
EST:     GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAG                         GTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
genomic: GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatga ... ctgttgtcagGTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
EST: gi|148937186|gb|EC881367.2|EC881367
EST:     GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAG                         GTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
genomic: GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatga ... ctgttgtcagGTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
EST: gi|37419877|gb|CF647624.1|CF647624
EST:     GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAG                         GTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
genomic: GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatga ... ctgttgtcagGTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
EST: gi|71300241|gb|DR786191.1|DR786191
EST:     GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAG                         GTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
genomic: GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatga ... ctgttgtcagGTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
EST: gi|148999277|gb|EE036205.2|EE036205
EST:     GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAG                         GTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
genomic: GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatga ... ctgttgtcagGTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
EST: gi|148950556|gb|EC896133.2|EC896133
EST:     GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAG                         GTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
genomic: GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatga ... ctgttgtcagGTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
EST: gi|71764976|gb|DR962913.1|DR962913
EST:     GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAG                         GTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
genomic: GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatga ... ctgttgtcagGTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
EST: gi|32855731|gb|CD995412.1|CD995412
EST:     GAAACCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAG                         GTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATCCATCGGCGATGG
genomic: GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatga ... ctgttgtcagGTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
EST: gi|5555573|gb|AI881524.1|AI881524
EST:     GAAACCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAG                         GTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCAT
genomic: GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatga ... ctgttgtcagGTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCAT
EST: gi|71300237|gb|DR786190.1|DR786190
EST:     GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAG                         GTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
genomic: GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatga ... ctgttgtcagGTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
EST: gi|33093570|gb|CF053564.1|CF053564
EST:     GAAACCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAG                         GTTGTAGAGTTGGACTTCCTGTACC
genomic: GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatga ... ctgttgtcagGTTGTAGAGTTGGACTTCCTGTACC
EST: gi|148950415|gb|EC895982.2|EC895982
EST:     GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAG                         GTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
genomic: GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatga ... ctgttgtcagGTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
EST: gi|33093597|gb|CF053591.1|CF053591
EST:     GAAACCGCTGGGGCGTAGTTATGTCATGGAACTCAGGGTTTTCTACTCAG                         GTTGTAGAGTTGGACTTCCTGTA
genomic: GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatga ... ctgttgtcagGTTGTAGAGTTGGACTTCCTGTA
EST: gi|148939598|gb|EC884226.2|EC884226
EST:     GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAG                         GTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG
genomic: GAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatga ... ctgttgtcagGTTGTAGAGTTGGACTTCCTGTACCCTAGCGAAGGCATTCATCGGCGATGG

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAATAAAAAGTGGAAAGAAGGGTTCCATGTAACATCTATGGCCACTGCTGGAAATCGCTGGGGCGTAGTTATGTCAAGGAACTCAGGGTTTTCTACTCAGgttaggatgattgcttgaccacgcaggcattatttatgctgtgtccttgcgtaaccatattcctctgaattgtaccaactgaggcctgagtatttaaccaaacaacaacaacaaaaaaactgttgtcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA