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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatatttcttttccagtatgaggaagctagcaactcaatacaatgtgtgaaacgttttttttgagagctttgagtaatgttgcgtgtcttgtagg...

Basic information

species Zea mays
transcript GRMZM2G039954_T04
intron # 4
splice site 5'
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|211452545|gb|FK959195.1|FK959195
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
EST: gi|211066312|gb|FK959235.1|FK959235
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         AT-GGAGCGACAAAGGCAGAGTTCTTCTGCAAGA
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGA
EST: gi|211071802|gb|FK959273.1|FK959273
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
EST: gi|18181111|gb|BM382321.1|BM382321
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
EST: gi|211066314|gb|FK959237.1|FK959237
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
EST: gi|211302619|gb|FL366312.1|FL366312
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
EST: gi|211454670|gb|FK959205.1|FK959205
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
EST: gi|211071805|gb|FK959276.1|FK959276
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCCGAAGAAGTTCA
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTC-GAAGAAGTTCA
EST: gi|211450408|gb|FK959184.1|FK959184
EST:     ATTATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
genomic: AT-ATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
EST: gi|211454673|gb|FK959208.1|FK959208
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
EST: gi|211074529|gb|FK959279.1|FK959279
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
EST: gi|211456805|gb|FK959224.1|FK959224
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
EST: gi|211452548|gb|FK959198.1|FK959198
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
EST: gi|116824448|gb|EC868068.1|EC868068
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
EST: gi|211454677|gb|FK959212.1|FK959212
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGACAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
EST: gi|211069063|gb|FK959256.1|FK959256
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
EST: gi|211452546|gb|FK959196.1|FK959196
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
EST: gi|211066317|gb|FK959240.1|FK959240
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGGAAGAAGTTCA
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCG-AAGAAGTTCA
EST: gi|211069066|gb|FK959259.1|FK959259
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGACAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
EST: gi|211450407|gb|FK959183.1|FK959183
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCNGAAGAAGTTCA
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTC-GAAGAAGTTCA
EST: gi|211069060|gb|FK959253.1|FK959253
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGACAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
EST: gi|211452538|gb|FK959188.1|FK959188
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
EST: gi|211069062|gb|FK959255.1|FK959255
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
EST: gi|211452540|gb|FK959190.1|FK959190
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
EST: gi|211452543|gb|FK959193.1|FK959193
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
EST: gi|211452541|gb|FK959191.1|FK959191
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAG
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAG
EST: gi|211452550|gb|FK959200.1|FK959200
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
EST: gi|211066311|gb|FK959234.1|FK959234
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGARTTCTTCTGCAAGACATTCCGAAGAAGTTCA
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTC-GAAGAAGTTCA
EST: gi|116813303|gb|EC855734.1|EC855734
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
EST: gi|211454668|gb|FK959203.1|FK959203
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
EST: gi|211456803|gb|FK959222.1|FK959222
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAG                         ATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
genomic: ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT
EST: gi|211074535|gb|FK959285.1|FK959285
EST:     ATATGTTTATGCAGAAATTGAAGATGGCTYGCGGAGAATAAG                         ATTGGAGCGACAAAGGGMGAGTTCTTCTGCMAGACATTCGAAGAAGTTCAT
genomic: ATATGTTTATGCAGAAATTGAAGATGGCT-GCGGAGAATAAGgtacacatat ... actatggcagATTGGAGCGACAAAGGCAGAGTTCTTCTGCAAGACATTCGAAGAAGTTCAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATATGTTTATGCAGAAATTGAAGATGGCTGCGGAGAATAAGgtacacatatttcttttccagtatgaggaagctagcaactcaatacaatgtgtgaaacgttttttttgagagctttgagtaatgttgcgtgtcttgtagg

- - - - - - - -  TTGAAG
- - - - - - - - - TGAAGA
- - - - - - - - - - AAGATG
- - - - - - - - - - - - - - -  GGAGAA