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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatggtcctgttcctcatctcttcattaatttcttaaggatgctgaactgtggaatttcttgttacag

Basic information

species Zea mays
transcript GRMZM2G177914_T03
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G177914_T05 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os03g12710.1 (Oryza sativa), 5'ss of exon 3
CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg--------------tcctgttcctcatctctt---cattaatttcttaaggatgctgaactgtggaatttcttgttacag
|| ||||||||||||||||||||||||||| | |||||||| |||||| ||                ||||| || ||| || ||    |  | | |    || |||||  | |   |||   | | || |||
CCCCCCGAGAAGCATCAGGACCTCGTCCGCGGCGTCTTCCAGTgtatgtatcacccacagtctactttcctgctcttcaccttttgtatacgattatacgtagtatgcttgatttgtgaagcacgttttgcag

upper sequence: GRMZM2G177914_T05 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os01g25110.1 (Oryza sativa), 5'ss of exon 2
CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatggt-cctgttcctcatctcttcattaatttcttaaggatgctgaactgtggaat-ttcttgttacag
 | ||||||||||||||||| |||||||||   |||||||| |||||| || |  |  | ||| | |  || |  |      |  ||  |    | ||||| ||   || | || |||
GCCCCCGAGAAGCATCAGGAACTCGTCCGCGCCGTCTTCCAGTgtatgtatcgcacgcggtccgctttcctgctcttcaccttccagtgtatgtatctgtgaaaagctcgttttgcag
















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|211467101|gb|FK972980.1|FK972980
EST:     CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGAGAGCGCGAGGAATTTTGTCAAGGTGGACTCCA
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
EST: gi|211469618|gb|FK972985.1|FK972985
EST:     CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
EST: gi|19822213|gb|BQ048237.1|BQ048237
EST:     CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
EST: gi|211469620|gb|FK972987.1|FK972987
EST:     CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
EST: gi|71447059|gb|DR828109.1|DR828109
EST:     CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
EST: gi|211467096|gb|FK972975.1|FK972975
EST:     CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
EST: gi|211469627|gb|FK972994.1|FK972994
EST:     CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAAT                         TACTCTCTGCAAGG
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGG
EST: gi|211469622|gb|FK972989.1|FK972989
EST:     CCACCCGAGAAGCATCAGGACCTCGTC-GCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGAGAG
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGAGAG
EST: gi|149090359|gb|EE179665.2|EE179665
EST:     CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
EST: gi|149073163|gb|EE161440.2|EE161440
EST:     CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
EST: gi|211467090|gb|FK972969.1|FK972969
EST:     CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
EST: gi|211469619|gb|FK972986.1|FK972986
EST:     CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
EST: gi|211467098|gb|FK972977.1|FK972977
EST:     CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
EST: gi|211467097|gb|FK972976.1|FK972976
EST:     CCACCCGAGAAGCATCAGGACCTCGTC-GCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGA
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGA
EST: gi|211467089|gb|FK972968.1|FK972968
EST:     CCACCCGAGAAGCATCAGGACCTCGTC-GCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGATGAGCGCGA
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGA-GAGCGCGA
EST: gi|5499044|gb|AI854911.1|AI854911
EST:     CCACCGGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
EST: gi|211472147|gb|FK972996.1|FK972996
EST:     CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
EST: gi|211472153|gb|FK973002.1|FK973002
EST:     CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
EST: gi|211472152|gb|FK973001.1|FK973001
EST:     CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
EST: gi|211472150|gb|FK972999.1|FK972999
EST:     CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
EST: gi|211467094|gb|FK972973.1|FK972973
EST:     CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACT
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACT
EST: gi|26455836|gb|CA827419.1|CA827419
EST:     CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAG
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAG
EST: gi|211467100|gb|FK972979.1|FK972979
EST:     CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
EST: gi|211469628|gb|FK972995.1|FK972995
EST:     CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
EST: gi|211467088|gb|FK972967.1|FK972967
EST:     CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
EST: gi|211469626|gb|FK972993.1|FK972993
EST:     CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
EST: gi|211469614|gb|FK972981.1|FK972981
EST:     CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAAT                         TACTCTCTGCAAGG
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGG
EST: gi|71429421|gb|DR810471.1|DR810471
EST:     CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAAT                         TACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA
genomic: CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatgg ... cttgttacagTACTCTCTGCAAGGCCCGAGAGCGCGAGCAATTTTGTCAAGGTGGACTCCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCACCCGAGAAGCATCAGGACCTCGTCCGCTGTGTCTTCCAATgtatgcatggtcctgttcctcatctcttcattaatttcttaaggatgctgaactgtggaatttcttgttacag

- - -  AGAAGC