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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCAGAAAGATTACGTTCACTGGATCAACAGCTGTTGGCAAAAAACTGATGGCTGAATCTGCAAATACTGTGAAAAAGgtgtagtgaagagttccttaacgaaagtttcttatgcaatgtttatagctctcttcctgtaaaaaacatgattatcacacattgtgtaacttttattcat...

Basic information

species Zea mays
transcript GRMZM2G128114_T03
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G128114_T03 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os02g07760.1 (Oryza sativa), 5'ss of exon 10
GTCAGAAAGATTACGTTCACTGGATCAACAGCTGTTGGCAAAAAACTGATGGCTGAATCTGCAAATACTGTGAAAAAGgtgtagtgaagagttccttaac----gaaagtttcttatgcaatgtttatagctctcttcctgtaaaaaacatgattatcacacat-tgtgtaacttttattcat
|||||||||||||| ||||| || ||||||||||||||||||||||||||||||| ||| |||||||||||||| ||||| ||    |||  | || |      || | |    |||   |||  |   | |       |  || | || |||||  ||||  | ||| | | | |       
GTCAGAAAGATTACATTCACAGGGTCAACAGCTGTTGGCAAAAAACTGATGGCTGGATCAGCAAATACTGTGAAGAAGgtataaccgagaagttctgatgtttggacaataaaatatattatgaatgctgattctcctttagaatacacttgattgccacatgtctgtatgagtgtgc-----
















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|84980453|gb|DW530802.1|DW530802
EST:     CAGCTGTTGGCAAAAAACTGATGGCTGAATCTGCAAATACTGTGAAAAAG                         GTCTCTTTGGAACTTGGTGGGAATGCACCTTGCATTGTTTTTGATGATGCA
genomic: CAGCTGTTGGCAAAAAACTGATGGCTGAATCTGCAAATACTGTGAAAAAGgtgtagtgaa ... tattttttagGTCTCTTTGGAACTTGGTGGGAATGCACCTTGCATTGTTTTTGATGATGCA
EST: gi|32823461|gb|CD963183.1|CD963183
EST:     CAGCTGTTGGCAAAAAACTGATGGCTGAATCTGCAAATACTGTGAAAAAG                         GTCTCTTTGGAACTTGGTGGGAATGCACCTTGCATTGTTTTTGATGATGCA
genomic: CAGCTGTTGGCAAAAAACTGATGGCTGAATCTGCAAATACTGTGAAAAAGgtgtagtgaa ... tattttttagGTCTCTTTGGAACTTGGTGGGAATGCACCTTGCATTGTTTTTGATGATGCA
EST: gi|32827158|gb|CD966836.1|CD966836
EST:     CAGCTGTTGGCAAAAA-CTGATGGCTGAATCTGCAAATACTGTGAAAAAG                         GTCTCTTTGGAACTTGGTGGGAATGCACCTTGCATTGTTTTTGATGATGCA
genomic: CAGCTGTTGGCAAAAAACTGATGGCTGAATCTGCAAATACTGTGAAAAAGgtgtagtgaa ... tattttttagGTCTCTTTGGAACTTGGTGGGAATGCACCTTGCATTGTTTTTGATGATGCA
EST: gi|32837759|gb|CD977437.1|CD977437
EST:     CAGCTGTTGGCAAAAAACTGATGGCTGAATCTGCAAATACTGTGAAAAAG                         GTCTCTTTGGAACTTGGTGGGAATGCACCTTGCATTGTTTTTGATGATGCA
genomic: CAGCTGTTGGCAAAAAACTGATGGCTGAATCTGCAAATACTGTGAAAAAGgtgtagtgaa ... tattttttagGTCTCTTTGGAACTTGGTGGGAATGCACCTTGCATTGTTTTTGATGATGCA
EST: gi|67026356|gb|CO455105.1|CO455105
EST:     CAGCTGTTGGCAAAAAACTGATGGCTGAATCTGCAAATACTGTGAAAAAG                         GTCTCTTTGGAACTTGGTGGGAATGCACCTTGCATTGTTTTTGATGATGCA
genomic: CAGCTGTTGGCAAAAAACTGATGGCTGAATCTGCAAATACTGTGAAAAAGgtgtagtgaa ... tattttttagGTCTCTTTGGAACTTGGTGGGAATGCACCTTGCATTGTTTTTGATGATGCA
EST: gi|32809534|gb|CD961768.1|CD961768
EST:     CAGCTGTTGGCAAAAAACTGATGGCTGAATCTGCAAATACTGTGAAAAAG                         GTCTCTTTGGAACTTGGTGGGAATGCACCTTGCATTGTTTTTGATGATGCA
genomic: CAGCTGTTGGCAAAAAACTGATGGCTGAATCTGCAAATACTGTGAAAAAGgtgtagtgaa ... tattttttagGTCTCTTTGGAACTTGGTGGGAATGCACCTTGCATTGTTTTTGATGATGCA
EST: gi|32806857|gb|CD959091.1|CD959091
EST:     CAGCTGTTGGCAAAAAACTGATGGCTGAATCTGCAAATACTGTGAAAAAG                         GTCTCTTTGGAACTTGGTGGGAATGCACCTTGCATTGTTTTTGATGATGCA
genomic: CAGCTGTTGGCAAAAAACTGATGGCTGAATCTGCAAATACTGTGAAAAAGgtgtagtgaa ... tattttttagGTCTCTTTGGAACTTGGTGGGAATGCACCTTGCATTGTTTTTGATGATGCA
EST: gi|67040351|gb|CO466606.1|CO466606
EST:     CAGCTGTTGGCAAAAA-CTGATGGCTGAATCTGCAAATACTGTGAAAAAG                         GTCTCTTTGGAACTTGGTGGGAATGCACCTTGCATTGTTTTTGATGATGCA
genomic: CAGCTGTTGGCAAAAAACTGATGGCTGAATCTGCAAATACTGTGAAAAAGgtgtagtgaa ... tattttttagGTCTCTTTGGAACTTGGTGGGAATGCACCTTGCATTGTTTTTGATGATGCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCAGAAAGATTACGTTCACTGGATCAACAGCTGTTGGCAAAAAACTGATGGCTGAATCTGCAAATACTGTGAAAAAGgtgtagtgaagagttccttaacgaaagtttcttatgcaatgtttatagctctcttcctgtaaaaaacatgattatcacacattgtgtaacttttattcat

- - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - GCTGTT