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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCATAGTAGAAAACCCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAGgtttgttattagctcttagtacttctgttttttctgctgtaatgtctgttgctcagtatgattttgtgtatacctgtag

Basic information

species Zea mays
transcript GRMZM2G141903_T01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G141903_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os03g55389.1 (Oryza sativa), 5'ss of exon 8
GCATAGTAGAAAACCCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAGgtttgttattagctcttagtacttctgttttttctgctgtaatgtctgttgctcagtatgattttgtgtatacctgtag
||||||||||||||| |||| ||| ||||| |||| ||||||||||||||||||||| |||||||||||| | | ||||||  |  |||    |   |   |   ||     ||||| |  || ||  | |||| |  |||||
GCATAGTAGAAAACCATGGTCGAAATTCATTAATGCTGATAACCAACATCTAGTATCTCCTGAGgtttgtcaatggctcttgctgtttccaaatcaacc-ttaagataatgtttgcttaacatcatgct-tgtacatttgtag
















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|6012561|gb|AW061998.1|AW061998
EST:     ATGAATGGTGATAACCAACATCTAGTATCNCCTGAG                         GCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCNCCAAGACAGGCTT
genomic: ATGAATGGTGATAACCAACATCTAGTATCACCTGAGgtttgttatt ... atacctgtagGCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
EST: gi|149107620|gb|EE189502.2|EE189502
EST:     CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAG                         GCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
genomic: CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAGgtttgttatt ... atacctgtagGCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
EST: gi|18964717|gb|BM661166.1|BM661166
EST:     CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAG                         GCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
genomic: CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAGgtttgttatt ... atacctgtagGCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
EST: gi|78027572|gb|DV495959.1|DV495959
EST:     CCTGGTTGAAGTTCATGAATGCTGATAACCAACATCTAGTATCACCTGAG                         GCCATAGATTTTGTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
genomic: CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAGgtttgttatt ... atacctgtagGCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
EST: gi|76925598|gb|DV170499.1|DV170499
EST:     CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAG                         GCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
genomic: CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAGgtttgttatt ... atacctgtagGCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
EST: gi|60353291|gb|DN220264.1|DN220264
EST:     CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAG                         GCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
genomic: CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAGgtttgttatt ... atacctgtagGCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
EST: gi|87152871|gb|DY397660.1|DY397660
EST:     CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAG                         GCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
genomic: CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAGgtttgttatt ... atacctgtagGCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
EST: gi|5895649|gb|AW036895.1|AW036895
EST:     CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAG                         GCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
genomic: CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAGgtttgttatt ... atacctgtagGCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
EST: gi|17970089|gb|BM276855.1|BM276855
EST:     CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAG                         GCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
genomic: CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAGgtttgttatt ... atacctgtagGCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
EST: gi|60344732|gb|DN211705.1|DN211705
EST:     CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAG                         GCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
genomic: CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAGgtttgttatt ... atacctgtagGCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
EST: gi|24769466|gb|CA404595.1|CA404595
EST:     CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAG                         GCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
genomic: CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAGgtttgttatt ... atacctgtagGCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
EST: gi|60394565|gb|DN227435.1|DN227435
EST:     CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAG                         GCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
genomic: CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAGgtttgttatt ... atacctgtagGCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
EST: gi|5819188|gb|AI987394.1|AI987394
EST:     CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAG                         GCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
genomic: CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAGgtttgttatt ... atacctgtagGCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
EST: gi|5714067|gb|AI944052.1|AI944052
EST:     CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAG                         GCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
genomic: CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAGgtttgttatt ... atacctgtagGCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
EST: gi|38568894|gb|CF974779.1|CF974779
EST:     CTGCGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAG                         GCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
genomic: CTG-GTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAGgtttgttatt ... atacctgtagGCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
EST: gi|5762096|gb|AI967144.1|AI967144
EST:     CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAG                         GCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
genomic: CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAGgtttgttatt ... atacctgtagGCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
EST: gi|78021390|gb|DV489777.1|DV489777
EST:     CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAG                         GCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
genomic: CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAGgtttgttatt ... atacctgtagGCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
EST: gi|60399542|gb|DN232353.1|DN232353
EST:     CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAG                         GCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT
genomic: CCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAGgtttgttatt ... atacctgtagGCCATAGATTTTCTCGATAAGCTCCTGCGCTATGATCACCAAGACAGGCTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCATAGTAGAAAACCCTGGTTGAAGTTCATGAATGGTGATAACCAACATCTAGTATCACCTGAGgtttgttattagctcttagtacttctgttttttctgctgtaatgtctgttgctcagtatgattttgtgtatacctgtag

- - - - - - - - -  TTGAAG