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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtccactgcatgcacatgcatctacagatgaagcacctctctgctcagtgctgatgtactactagctaaaaccgacttgcatattgcagACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGAACAGCTCTTGGGATCAAGAAG

Basic information

species Zea mays
transcript GRMZM2G471269_T03
intron # 8
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|71762617|gb|DR960554.1|DR960554
EST:     GAGGGGCGACGCTGAACCATCCGCCAGCTCGTCCTCGGTTTGGCTGCATC                         ACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGA
genomic: GAGGGGCGACGCTGAACCATCCGCCAGCTCGTCCTCGGTTTGGCTGCATCgtgagtccac ... catattgcagACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGA
EST: gi|78120814|gb|DV539198.1|DV539198
EST:     GAGGGGCGACGCTGAACCATCCGCCAGCTCGTCCTCGGTTTGGCTGCATC                         ACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGA
genomic: GAGGGGCGACGCTGAACCATCCGCCAGCTCGTCCTCGGTTTGGCTGCATCgtgagtccac ... catattgcagACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGA
EST: gi|148949256|gb|EC894699.2|EC894699
EST:     GAGGGGGGACGCTGAACCATCCGCCAGCTCGTCCTCGGTTTGGGTGCATC                         ACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGA
genomic: GAGGGGCGACGCTGAACCATCCGCCAGCTCGTCCTCGGTTTGGCTGCATCgtgagtccac ... catattgcagACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGA
EST: gi|14203015|gb|BG836692.1|BG836692
EST:     AGGGGCGACGCTGAACCATCCGCCAGCTCGTCCTCGGTTTGGCTGCANTM                         A-CTACGGCTACTMCCTGTCGTATTTCTGGGCGAACGATGAACGMACTCG
genomic: AGGGGCGACGCTGAACCATCCGCCAGCTCGTCCTCGGTTTGGCTGCA-TCgtgagtccac ... catattgcagACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCG
EST: gi|78083939|gb|DV512332.1|DV512332
EST:     GAGGGGGGACGCTGAACCATCCGCCAGCTCGTCCTCGGTTTGGGTGCATC                         ACCTACGGCTACTACCTGTCGTATTTTTGGGCGAACGATGAACGCACTCGA
genomic: GAGGGGCGACGCTGAACCATCCGCCAGCTCGTCCTCGGTTTGGCTGCATCgtgagtccac ... catattgcagACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGA
EST: gi|5069690|gb|AI737655.1|AI737655
EST:     CTCGGTTTGGCTGCATC                         ACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGA
genomic: CTCGGTTTGGCTGCATCgtgagtccac ... catattgcagACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGA
EST: gi|8401242|gb|BE056876.1|BE056876
EST:     TGAACCATCCGCCAGCTCGTCCTCGGTTTGGCTGCATC                         ACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGA
genomic: TGAACCATCCGCCAGCTCGTCCTCGGTTTGGCTGCATCgtgagtccac ... catattgcagACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGA
EST: gi|71299116|gb|DR785562.1|DR785562
EST:     GAGGGGCGACGCTGAACCATCCGCCAGCTCGTCCTCGGTTTGGCTGCATC                         ACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGA
genomic: GAGGGGCGACGCTGAACCATCCGCCAGCTCGTCCTCGGTTTGGCTGCATCgtgagtccac ... catattgcagACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGA
EST: gi|74233921|gb|DT641835.1|DT641835
EST:     GAGGGGCGACGCTGAACCATCCGCCAGCTCGTCCTCGGTTTGGCTGCATC                         ACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGA
genomic: GAGGGGCGACGCTGAACCATCCGCCAGCTCGTCCTCGGTTTGGCTGCATCgtgagtccac ... catattgcagACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGA
EST: gi|78125073|gb|DV543457.1|DV543457
EST:     CAGCTCGTCCTCGGTTTGGCTGCATC                         ACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGA
genomic: CAGCTCGTCCTCGGTTTGGCTGCATCgtgagtccac ... catattgcagACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGA
EST: gi|148966524|gb|EE017546.2|EE017546
EST:     GAGGGGCGACGCTGAACCATCCGCCAGCTCGTCCTCGGTTTGGCTGCATC                         ACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGA
genomic: GAGGGGCGACGCTGAACCATCCGCCAGCTCGTCCTCGGTTTGGCTGCATCgtgagtccac ... catattgcagACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGA
EST: gi|67026269|gb|CO455018.1|CO455018
EST:     GAGGGGCGACGCTGAACCATCCGCCAGCTCGTCCTCCGTTTGGCTGCATC                         ACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGA
genomic: GAGGGGCGACGCTGAACCATCCGCCAGCTCGTCCTCGGTTTGGCTGCATCgtgagtccac ... catattgcagACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGA
EST: gi|37397736|gb|CF636176.1|CF636176
EST:     GAGGGGCGACGCTGAACCATCCGCCAGCTCGTCCTCGGTTTGGCTGCATC                         ACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGA
genomic: GAGGGGCGACGCTGAACCATCCGCCAGCTCGTCCTCGGTTTGGCTGCATCgtgagtccac ... catattgcagACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGA
EST: gi|40337181|gb|CK371251.1|CK371251
EST:     GAGGGGCGACGCTGAACCATCCGCCAGCTCGTCCTCGGTTTGGCTGCATC                         ACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGA
genomic: GAGGGGCGACGCTGAACCATCCGCCAGCTCGTCCTCGGTTTGGCTGCATCgtgagtccac ... catattgcagACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acctctctgctcagtgctgatgtactactagctaaaaccgacttgcatattgcagACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGAACAGCTCTTGGGATCAAGAAG
                             agctaaa  putative branch site (score: 3)
                                taaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtccactgcatgcacatgcatctacagatgaagcacctctctgctcagtgctgatgtactactagctaaaaccgacttgcatattgcagACCTACGGCTACTACCTGTCGTATTTCTGGGCGAACGATGAACGCACTCGAACAGCTCTTGGGATCAAGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG