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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTTGCTTGCCTGTGCCTGCTCCTGTTGGGCTTCGGCACCTGCACAGAGGAGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTTgtgagtaaccaagtatcgattttctttttaatttaattcaataaaatgttgtttgatgaatggcaatgtctagtttccaacagtcatgttgatatttgca...

Basic information

species Zea mays
transcript GRMZM5G833593_T05
intron # 1
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|50334984|gb|CO530110.1|CO530110
EST:     AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTT                         GTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
genomic: AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTTgtgagtaacc ... ctggctgcagGTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
EST: gi|71443400|gb|DR824450.1|DR824450
EST:     AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTT                         GTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
genomic: AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTTgtgagtaacc ... ctggctgcagGTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
EST: gi|211215261|gb|FL300696.1|FL300696
EST:     AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCAAATTCGTGACTT                         GTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
genomic: AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTTgtgagtaacc ... ctggctgcagGTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
EST: gi|71448668|gb|DR829718.1|DR829718
EST:     AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTT                         GTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
genomic: AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTTgtgagtaacc ... ctggctgcagGTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
EST: gi|149110781|gb|EE190605.2|EE190605
EST:     AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTT                         GTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGC
genomic: AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTTgtgagtaacc ... ctggctgcagGTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGC
EST: gi|18661073|gb|BM501196.1|BM501196
EST:     AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTT                         GTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGANGGCATCACCATCT
genomic: AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTTgtgagtaacc ... ctggctgcagGTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
EST: gi|211215255|gb|FL300690.1|FL300690
EST:     AGACATAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTT                         GTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATNT
genomic: AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTTgtgagtaacc ... ctggctgcagGTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
EST: gi|211215256|gb|FL300691.1|FL300691
EST:     AGACAGAGGTMTACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTT                         GTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCAYNT
genomic: AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTTgtgagtaacc ... ctggctgcagGTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
EST: gi|76929776|gb|DV172157.1|DV172157
EST:     AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTT                         GTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
genomic: AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTTgtgagtaacc ... ctggctgcagGTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
EST: gi|89253099|gb|DY624885.1|DY624885
EST:     AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTT                         GTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
genomic: AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTTgtgagtaacc ... ctggctgcagGTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
EST: gi|78108901|gb|DV527318.1|DV527318
EST:     ACAGAGGTATACAGAGCCACGCCAGCCAAGGATTTTCGAATTCGTGACTT                         GTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
genomic: ACAGAGGTATACAGAGCCACGC-AGCCAAGGATTT-CGAATTCGTGACTTgtgagtaacc ... ctggctgcagGTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
EST: gi|211215260|gb|FL300695.1|FL300695
EST:     AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTT                         GTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
genomic: AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTTgtgagtaacc ... ctggctgcagGTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
EST: gi|211215254|gb|FL300689.1|FL300689
EST:     ARACATAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTT                         GTTGGAGTTTCTGAATGGGCAGCCCAGGGGATGCGGAGGG
genomic: AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTTgtgagtaacc ... ctggctgcagGTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGG
EST: gi|211445494|gb|FL153900.1|FL153900
EST:     AGACATAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTT                         GTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCAYGT
genomic: AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTTgtgagtaacc ... ctggctgcagGTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
EST: gi|76934920|gb|DV174088.1|DV174088
EST:     AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTT                         GTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
genomic: AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTTgtgagtaacc ... ctggctgcagGTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
EST: gi|71771514|gb|DR969451.1|DR969451
EST:     AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTT                         GTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
genomic: AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTTgtgagtaacc ... ctggctgcagGTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
EST: gi|211445496|gb|FL153902.1|FL153902
EST:     AGACATAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTT                         GTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCA
genomic: AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTTgtgagtaacc ... ctggctgcagGTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCA
EST: gi|91874026|gb|EB403983.1|EB403983
EST:     AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTT                         GTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
genomic: AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTTgtgagtaacc ... ctggctgcagGTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
EST: gi|74234252|gb|DT642166.1|DT642166
EST:     AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTT                         GTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
genomic: AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTTgtgagtaacc ... ctggctgcagGTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
EST: gi|211215259|gb|FL300694.1|FL300694
EST:     AGACATAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTT                         GTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
genomic: AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTTgtgagtaacc ... ctggctgcagGTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
EST: gi|211215262|gb|FL300697.1|FL300697
EST:     AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTT                         GTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCAT-T
genomic: AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTTgtgagtaacc ... ctggctgcagGTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
EST: gi|71774208|gb|DR972086.1|DR972086
EST:     AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTT                         GTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT
genomic: AGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTTgtgagtaacc ... ctggctgcagGTTGGAGTTTCTGAATGGCCAGCCCAGGGGATGCGGAGGGCATCACCATCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTTGCTTGCCTGTGCCTGCTCCTGTTGGGCTTCGGCACCTGCACAGAGGAGACAGAGGTATACAGAGCCACGCAGCCAAGGATTTCGAATTCGTGACTTgtgagtaaccaagtatcgattttctttttaatttaattcaataaaatgttgtttgatgaatggcaatgtctagtttccaacagtcatgttgatatttgca

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