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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCCTGGTGTTCCAATCATGTACATCACAAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgatatcttcatctgacaaactttgttactgtgttctctctgtccctagcttatatcctacaatcacataagattgcagtactctgatgcttttttggcattcttgcag

Basic information

species Zea mays
transcript GRMZM2G140689_T02
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G140689_T01 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os06g06410.2 (Oryza sativa), 5'ss of exon 8
GTTCCTGGTGTTCCAATCATGTACATCACAAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgta-tgtgatatcttcatctgacaaactttgttac-tgtgttctctctgtccct-agcttatatcctacaatcacataagattgcagtactctgatgcttttttggcattcttgcag
||||||||||||||||||||||| |||||  | || ||||| ||||||||||| |||||||| || ||||| || ||||||| |||  | | | |   || ||  || | | |  |  ||  ||| |||   | | ||  || | |  |        | ||| |  || | | ||||                   
GTTCCTGGTGTTCCAATCATGTATATCACTCGGCACAGGTACTCGATAGAACGACTCCCTGAAGCTACAATCGGAGGAGgtaatgtattttgtgctggtggcagtctctatcaaatccgtcttctatgttaatcatctcctacctttaacctgaggcacatttcgata-tgtaatgcag-----------------
















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|31352269|gb|CD436626.1|CD436626
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTATGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|71445647|gb|DR826697.1|DR826697
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|88754303|gb|DY538444.1|DY538444
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTTTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|89252677|gb|DY624463.1|DY624463
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGGGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|93013575|gb|EB639095.1|EB639095
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTTTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|88746998|gb|DY531139.1|DY531139
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTTTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|74236372|gb|DT644286.1|DT644286
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|76021687|gb|DT948857.1|DT948857
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|19770099|gb|BQ034820.1|BQ034820
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|50326783|gb|CO521909.1|CO521909
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|74245266|gb|DT653180.1|DT653180
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|211295565|gb|FL447041.1|FL447041
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|50332974|gb|CO528100.1|CO528100
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|89247134|gb|DY618920.1|DY618920
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTTTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|211091999|gb|FL476412.1|FL476412
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|93011681|gb|EB637201.1|EB637201
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|74239821|gb|DT647735.1|DT647735
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|213173441|gb|FM193835.1|FM193835
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|76018425|gb|DT945595.1|DT945595
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCCCAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTTTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|19769624|gb|BQ034345.1|BQ034345
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|50326824|gb|CO521950.1|CO521950
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|78025632|gb|DV494019.1|DV494019
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|33468200|gb|CF245249.1|CF245249
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|78077064|gb|DV505498.1|DV505498
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTTTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|50330326|gb|CO525452.1|CO525452
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTTTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|76292363|gb|DV031931.1|DV031931
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTTTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|5688786|gb|AI941801.1|AI941801
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACTA
EST: gi|5649962|gb|AI920322.1|AI920322
EST:     AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAG                         CACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACT
genomic: AAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgata ... attcttgcagCACCAAGAATCTGATCGGTGCAGACATGAGATGTTCTGGGATGTAATACT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTCCTGGTGTTCCAATCATGTACATCACAAGACATAGGTATTCGATAGAACGGCTCCCTGAGGCCACAATTGGTGGAGgtatgtgatatcttcatctgacaaactttgttactgtgttctctctgtccctagcttatatcctacaatcacataagattgcagtactctgatgcttttttggcattcttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG