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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTAAAGAACGATGACATCAGGCGAACTGTCCTGAATAGTGTTGTTGGTACCTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAATTTCCTGAGgtagggtgtaattgcaccttctctatgtgtcttttttgctgttgtatttagaagttatatctagaagttattcacag

Basic information

species Zea mays
transcript GRMZM2G136389_T02
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G136389_T03 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os03g07990.1 (Oryza sativa), 5'ss of exon 6
GTAAAGAACGATGACATCAGGCGAACTGTCCTGAATAGTGTTGTTGGTACCTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAATTTCCTGAGgtagggtgtaattgcacc------------ttctctatgtgtcttttttg---ctgttgtatttagaagttatatctagaagttattcacag
||||| || |||||  ||| |||||||||  ||||||| || ||||| ||| | ||||| ||| |||||||||||||  ||||||||| |||||||| |||| ||   ||| |||              || | ||| |  ||| |       | || |  |   || ||| ||||  ||||| ||| |||
GTAAAAAATGATGATCTCAAGCGAACTGTTTTGAATAGCGTCGTTGGCACCCTGGATGTTTGTATAAGGCATCCTCTGCATGGGGAGACATTTCCTGCGgtatggaaaaatagcagtatagcacccatgttttttatataacttctacaatttttttatggtggaaaattacatctcaaagttcttcccag
















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|101382962|gb|EB813534.1|EB813534
EST:     CCTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAATTTCCTGAG                         GAGCCTGGAAAACCGTCTCTTCACTGTCGAATTTATCAGCCTGATCAGCCA
genomic: CCTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAATTTCCTGAGgtagggtgta ... ttattcacagGAGCCTGGAAAACCGTCTCTTCACTGTCGAATTTATCAGCCTGATCAGCCA
EST: gi|71319331|gb|DR796417.1|DR796417
EST:     CCTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAATTTCCTGAG                         GAGCCTGGAAAACCGTCTCTTCACTGTCGAATTTATCAGCCTGATCAGCCA
genomic: CCTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAATTTCCTGAGgtagggtgta ... ttattcacagGAGCCTGGAAAACCGTCTCTTCACTGTCGAATTTATCAGCCTGATCAGCCA
EST: gi|78179764|gb|DV550137.1|DV550137
EST:     TATGGGGAGAAATTTCCTGAG                         GAGCCTGGAAAACCGTCTCTTCACTGTCGAATTTATCAGCCTGATCAGCCA
genomic: TATGGGGAGAAATTTCCTGAGgtagggtgta ... ttattcacagGAGCCTGGAAAACCGTCTCTTCACTGTCGAATTTATCAGCCTGATCAGCCA
EST: gi|15100324|gb|BI396115.1|BI396115
EST:     CCTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAATTTCCTGAG                         GAGCCTGGAAAACCGTCTCTTCACTGTCGAATTTATCAGCCTGATCAGCCA
genomic: CCTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAATTTCCTGAGgtagggtgta ... ttattcacagGAGCCTGGAAAACCGTCTCTTCACTGTCGAATTTATCAGCCTGATCAGCCA
EST: gi|71431214|gb|DR812264.1|DR812264
EST:     CCTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAATTTCCTGAG                         GAGCCTGGAAAACCGTCTCTTCACTGTCGAATTTATCAGCCTGATCAGCCA
genomic: CCTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAATTTCCTGAGgtagggtgta ... ttattcacagGAGCCTGGAAAACCGTCTCTTCACTGTCGAATTTATCAGCCTGATCAGCCA
EST: gi|60340647|gb|DN207620.1|DN207620
EST:     CCTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAATTTCCTGAG                         GAGCCTGGAAAACCGTCTCTTCACTGTCGAATTTATCAGCCTGATCAGCCA
genomic: CCTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAATTTCCTGAGgtagggtgta ... ttattcacagGAGCCTGGAAAACCGTCTCTTCACTGTCGAATTTATCAGCCTGATCAGCCA
EST: gi|32865190|gb|CF004872.1|CF004872
EST:     GGGGAGAAATTTCCTGAG                         GAGCCTGGAAAACCGTCTCTTCACTGTCGAATTTATCAGCCTGATCAGCCA
genomic: GGGGAGAAATTTCCTGAGgtagggtgta ... ttattcacagGAGCCTGGAAAACCGTCTCTTCACTGTCGAATTTATCAGCCTGATCAGCCA
EST: gi|71431215|gb|DR812265.1|DR812265
EST:     CCTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAATTTCCTGAG                         GAGCCTGAAAAAC-GTCTCTTCACTGTCGAA
genomic: CCTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAATTTCCTGAGgtagggtgta ... ttattcacagGAGCCTGGAAAACCGTCTCTTCACTGTCGAA
EST: gi|91876453|gb|EB406410.1|EB406410
EST:     CCTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAA-TTTCCTGAG                         GAGCCTGAAAAACCGTC
genomic: CCTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAATTTCCTGAGgtagggtgta ... ttattcacagGAGCCTGGAAAACCGTC
EST: gi|91878483|gb|EB408440.1|EB408440
EST:     CCTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAATTTCCTGAG                         GAGCCTGGAAAACCGTCTCTTCACTGTCGAATTTATCAGCCTGATCAGCCA
genomic: CCTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAATTTCCTGAGgtagggtgta ... ttattcacagGAGCCTGGAAAACCGTCTCTTCACTGTCGAATTTATCAGCCTGATCAGCCA
EST: gi|94472235|gb|EB701193.1|EB701193
EST:     CTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAAATTCCTTGAG                         GAGCCTGGAAAACCGTCTCTTCACTGTCGAAATTTATCAGCCTGATCAGC
genomic: CTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAATTTCCT-GAGgtagggtgta ... ttattcacagGAGCCTGGAAAACCGTCTCTTCACTGTCGAA-TTTATCAGCCTGATCAGC
EST: gi|87153075|gb|DY397864.1|DY397864
EST:     CCTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAATTTCCTGAG                         GAGCCTGGAAAACCGTCTCTTCACTGTCGAATTTATCAGCCTGATCAGCCA
genomic: CCTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAATTTCCTGAGgtagggtgta ... ttattcacagGAGCCTGGAAAACCGTCTCTTCACTGTCGAATTTATCAGCCTGATCAGCCA
EST: gi|71429124|gb|DR810174.1|DR810174
EST:     CCTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAATTTCCTGAG                         GAGCCCTGGAAA-CCGTCTCTTCACTGTCGAATTTATCAGCCTGATCAGCC
genomic: CCTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAATTTCCTGAGgtagggtgta ... ttattcacagGAGCC-TGGAAAACCGTCTCTTCACTGTCGAATTTATCAGCCTGATCAGCC
EST: gi|78114508|gb|DV532897.1|DV532897
EST:     CCTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAATTTCCTGAG                         GAGCCTGGAAAACCGTCTCTTCACTGTCGAATTTATCAGCCTGATCAGCCA
genomic: CCTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAATTTCCTGAGgtagggtgta ... ttattcacagGAGCCTGGAAAACCGTCTCTTCACTGTCGAATTTATCAGCCTGATCAGCCA
EST: gi|12045635|gb|BF727774.1|BF727774
EST:     ATCCTCTATATGGGGAGAAATTTCCTGAG                         GAGCCTGGAAAACCGTCTCTTCACTGTCGAATTTATCAGCCTGATCAGCCA
genomic: ATCCTCTATATGGGGAGAAATTTCCTGAGgtagggtgta ... ttattcacagGAGCCTGGAAAACCGTCTCTTCACTGTCGAATTTATCAGCCTGATCAGCCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTAAAGAACGATGACATCAGGCGAACTGTCCTGAATAGTGTTGTTGGTACCTTAGATGTATGTGTAAGGCATCCTCTATATGGGGAGAAATTTCCTGAGgtagggtgtaattgcaccttctctatgtgtcttttttgctgttgtatttagaagttatatctagaagttattcacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA