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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcatctgtaatgtatccacgcatttatttggcgtcgtcggctgaatcagaaccagaaccacgttctcatatagtgatctgagcttacttgtctgaattcttgtttttttttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCTGGATGGATGGAACCCCAAGGCCCCACCAAGAGCTGTCGTTCCAAGTGTC

Basic information

species Zea mays
transcript GRMZM2G126900_T02
intron # 9
splice site 3'
intron type U2

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|71443057|gb|DR824107.1|DR824107
EST:     GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAG                         TACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
genomic: GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAGgtatgcatct ... ttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
EST: gi|31363556|gb|CD447913.1|CD447913
EST:     GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAG                         TACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCTGGCCTG-CCTGGACC
genomic: GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAGgtatgcatct ... ttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGC-GGCCTGGCCTGGACC
EST: gi|78076467|gb|DV504901.1|DV504901
EST:     GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAG                         TACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
genomic: GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAGgtatgcatct ... ttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
EST: gi|148941675|gb|EC886622.2|EC886622
EST:     GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAG                         TACTTCCCGGCCAAGTTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
genomic: GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAGgtatgcatct ... ttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
EST: gi|78119916|gb|DV538300.1|DV538300
EST:     GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAG                         TACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
genomic: GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAGgtatgcatct ... ttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
EST: gi|45847402|gb|CN071345.1|CN071345
EST:     GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAG                         TACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
genomic: GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAGgtatgcatct ... ttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
EST: gi|60339537|gb|DN206510.1|DN206510
EST:     GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAG                         TACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
genomic: GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAGgtatgcatct ... ttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
EST: gi|76923451|gb|DV169494.1|DV169494
EST:     GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAG                         TACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
genomic: GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAGgtatgcatct ... ttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
EST: gi|148962201|gb|EE013016.2|EE013016
EST:     GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAG                         TACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
genomic: GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAGgtatgcatct ... ttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
EST: gi|37401805|gb|CF638271.1|CF638271
EST:     GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAG                         TACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
genomic: GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAGgtatgcatct ... ttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
EST: gi|93281927|gb|EB674191.1|EB674191
EST:     GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCTTAATCGACAAG                         TACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
genomic: GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAGgtatgcatct ... ttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
EST: gi|60397791|gb|DN230607.1|DN230607
EST:     GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAG                         TACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
genomic: GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAGgtatgcatct ... ttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
EST: gi|15057218|gb|BI361190.1|BI361190
EST:     GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAG                         TACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
genomic: GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAGgtatgcatct ... ttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
EST: gi|93016474|gb|EB641994.1|EB641994
EST:     GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAG                         TACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
genomic: GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAGgtatgcatct ... ttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
EST: gi|60359616|gb|DN226589.1|DN226589
EST:     GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAG                         TACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
genomic: GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAGgtatgcatct ... ttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
EST: gi|78119915|gb|DV538299.1|DV538299
EST:     GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAG                         TACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
genomic: GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAGgtatgcatct ... ttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
EST: gi|40303359|gb|CK347746.1|CK347746
EST:     GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAG                         TACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
genomic: GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAGgtatgcatct ... ttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
EST: gi|14996904|gb|BI319057.1|BI319057
EST:     GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAG                         TACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
genomic: GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAGgtatgcatct ... ttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
EST: gi|50333620|gb|CO528746.1|CO528746
EST:     GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAG                         TACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
genomic: GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAGgtatgcatct ... ttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
EST: gi|60396286|gb|DN229155.1|DN229155
EST:     GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAG                         TACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
genomic: GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAGgtatgcatct ... ttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
EST: gi|60347921|gb|DN214894.1|DN214894
EST:     GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAG                         TACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
genomic: GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAGgtatgcatct ... ttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
EST: gi|14996932|gb|BI319072.1|BI319072
EST:     GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAG                         TACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
genomic: GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAGgtatgcatct ... ttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCT
EST: gi|211354362|gb|FL217076.1|FL217076
EST:     GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAG                         TACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGG
genomic: GGATCGACGTGGAGGAGGTGAAGCCCTACTACATGTCCCTAATCGACAAGgtatgcatct ... ttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcatatagtgatctgagcttacttgtctgaattcttgtttttttttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCTGGATGGATGGAACCCCAAGGCCCCACCAAGAGCTGTCGTTCCAAGTGTC
                agcttac  putative branch site (score: 3)
                                ttcttgtttttttttc  putative PPT
                              aattcttgtttttttt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgcatctgtaatgtatccacgcatttatttggcgtcgtcggctgaatcagaaccagaaccacgttctcatatagtgatctgagcttacttgtctgaattcttgtttttttttccctgcagTACTTCCCGGCCAAGCTAAGATGGTGAGAAGGGGCGGCCTGGCCTGGACCTGGATGGATGGAACCCCAAGGCCCCACCAAGAGCTGTCGTTCCAAGTGTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT