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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcctgccccttaccttcgcttccttccgtgcaaaaatgagcacccgcgccacaattgaagctatttggctatctgtcttaggatcggatctgatctagtcacgagtgtttgcagtcgtttttgagtaatatcttccattgtttttcttgtgcccagAAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCAAGCGGCCGGCGATGGCTCGGAGCCCCTGCGACCTCCGCCTCCTCCTCCT

Basic information

species Zea mays
transcript GRMZM2G426275_T04
intron # 1
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|211529742|gb|FL258568.1|FL258568
EST:     CGCCTCGTCGGGCTC-GGTCCTTTGCCGGCGACGAGCGCGTGCACACCAG                         AAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
genomic: CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAGgtatgcctgc ... ttgtgcccagAAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
EST: gi|148986617|gb|EE030388.2|EE030388
EST:     CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAG                         AAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
genomic: CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAGgtatgcctgc ... ttgtgcccagAAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
EST: gi|211526749|gb|FL258558.1|FL258558
EST:     CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAG                         AAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
genomic: CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAGgtatgcctgc ... ttgtgcccagAAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
EST: gi|211529739|gb|FL258565.1|FL258565
EST:     CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAG                         AAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
genomic: CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAGgtatgcctgc ... ttgtgcccagAAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
EST: gi|211526751|gb|FL258560.1|FL258560
EST:     CGCCTCGTCGGGCTC-GGTCCTTTGCCGGCGACGAGCGCGTGCACACCAG                         AAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
genomic: CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAGgtatgcctgc ... ttgtgcccagAAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
EST: gi|211529740|gb|FL258566.1|FL258566
EST:     CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAG                         AAGAATACAGTGGAAGTGGTATGCGGTTGTNAAACGATTTCGATTATTCCA
genomic: CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAGgtatgcctgc ... ttgtgcccagAAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
EST: gi|211529737|gb|FL258563.1|FL258563
EST:     CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAG                         AAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
genomic: CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAGgtatgcctgc ... ttgtgcccagAAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
EST: gi|149082839|gb|EE172063.2|EE172063
EST:     CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACC--                         -AGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
genomic: CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAGgtatgcctgc ... ttgtgcccagAAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
EST: gi|211526747|gb|FL258556.1|FL258556
EST:     CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAG                         AAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
genomic: CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAGgtatgcctgc ... ttgtgcccagAAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
EST: gi|211529741|gb|FL258567.1|FL258567
EST:     CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAG                         AAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
genomic: CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAGgtatgcctgc ... ttgtgcccagAAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
EST: gi|211526748|gb|FL258557.1|FL258557
EST:     CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAG                         AAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
genomic: CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAGgtatgcctgc ... ttgtgcccagAAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
EST: gi|211526752|gb|FL258561.1|FL258561
EST:     CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAG                         AAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
genomic: CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAGgtatgcctgc ... ttgtgcccagAAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
EST: gi|211526745|gb|FL258554.1|FL258554
EST:     CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAG                         AAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
genomic: CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAGgtatgcctgc ... ttgtgcccagAAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
EST: gi|211529736|gb|FL258562.1|FL258562
EST:     CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAG                         AAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
genomic: CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAGgtatgcctgc ... ttgtgcccagAAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
EST: gi|211526750|gb|FL258559.1|FL258559
EST:     CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAG                         AAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
genomic: CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAGgtatgcctgc ... ttgtgcccagAAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
EST: gi|71439957|gb|DR821007.1|DR821007
EST:     CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAG                         AAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
genomic: CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAGgtatgcctgc ... ttgtgcccagAAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
EST: gi|211526744|gb|FL258553.1|FL258553
EST:     CGCCTCGTCGGGCTCGGGTCTTTTGCCGGCGACGAGCGCGTGCACACCAG                         AAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
genomic: CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAGgtatgcctgc ... ttgtgcccagAAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
EST: gi|211529738|gb|FL258564.1|FL258564
EST:     CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAG                         AAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
genomic: CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAGgtatgcctgc ... ttgtgcccagAAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
EST: gi|76285204|gb|DV024772.1|DV024772
EST:     CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAG                         AAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
genomic: CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAGgtatgcctgc ... ttgtgcccagAAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
EST: gi|74244431|gb|DT652345.1|DT652345
EST:     CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACC--                         -AGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA
genomic: CGCCTCGTCGGGCTCGGGTCCTTTGCCGGCGACGAGCGCGTGCACACCAGgtatgcctgc ... ttgtgcccagAAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgagtgtttgcagtcgtttttgagtaatatcttccattgtttttcttgtgcccagAAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCAAGCGGCCGGCGATGGCTCGGAGCCCCTGCGACCTCCGCCTCCTCCTCCT
                             tcttccattgtttttc  CT-rich tract
                tttttgagtaatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgcctgccccttaccttcgcttccttccgtgcaaaaatgagcacccgcgccacaattgaagctatttggctatctgtcttaggatcggatctgatctagtcacgagtgtttgcagtcgtttttgagtaatatcttccattgtttttcttgtgcccagAAGAATACAGTGGAAGTGGTATGCGGTTGTAAAACGATTTCGATTATTCCAAGCGGCCGGCGATGGCTCGGAGCCCCTGCGACCTCCGCCTCCTCCTCCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC