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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTATATATATAATACACACACTAGTGTAGTAGTGTGGAGTACTTCAATTGGCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatcgacagctccaagctcattccatgatttcgatctcgcttgtgtactgtactcgggcctggagcttgttctgatccgatcctgccttcctgctcggcgcccgcccgccccacttattcgattccatctcgtgttcctctgtgctgctgcag

Basic information

species Zea mays
transcript GRMZM2G108849_T04
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|211436678|gb|FL284626.1|FL284626
EST:     GCGTTGGCCGAAGAAGAGGAGAAGCGAMG-AAGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211436684|gb|FL284632.1|FL284632
EST:     CGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGCCTTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: CGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGC-TTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211439272|gb|FL284639.1|FL284639
EST:     GCGTTGGCCGAAGAAGAGGAGAAGCG-A-MRAGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211436683|gb|FL284631.1|FL284631
EST:     GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|76282755|gb|DV022323.1|DV022323
EST:     GCGAAGCAAGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211436676|gb|FL284624.1|FL284624
EST:     GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211436677|gb|FL284625.1|FL284625
EST:     AGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: AGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211439281|gb|FL284648.1|FL284648
EST:     GCGTTGGCCGAAGAAGAGGAGAAGCGAMG-AAGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211439276|gb|FL284643.1|FL284643
EST:     GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211439282|gb|FL284649.1|FL284649
EST:     GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211439283|gb|FL284650.1|FL284650
EST:     GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|13177948|gb|BG349206.1|BG349206
EST:     GGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211436681|gb|FL284629.1|FL284629
EST:     GCGTTGGCCGAAGAAGAGGAGAAGCG-A-MRAGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211042386|gb|FL284653.1|FL284653
EST:     GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211436674|gb|FL284622.1|FL284622
EST:     GCGTTGGCCGAAGAAGAGGAGAAGCG-AMRAAGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|93281375|gb|EB673639.1|EB673639
EST:     GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211439270|gb|FL284637.1|FL284637
EST:     GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211439277|gb|FL284644.1|FL284644
EST:     CGTTGGCCGAAGAAGAGGAGAAGCG-A-CVRAGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: CGTTGGCCGAAGAAGAGGAGAAGCGAAGC-AAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211439278|gb|FL284645.1|FL284645
EST:     GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCA-GCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211436686|gb|FL284634.1|FL284634
EST:     GCGTTGGCCGAAGAAGAGGAGAAGCGAMG-AAGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211042388|gb|FL284655.1|FL284655
EST:     GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCA-GCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211436680|gb|FL284628.1|FL284628
EST:     GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211439269|gb|FL284636.1|FL284636
EST:     GCGTTGGCCGAAGAAGAGGAGAAGCG-A-VRAGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211436679|gb|FL284627.1|FL284627
EST:     CGTTGGCCGAAGAAGAGGAGAAGCGAMG-AANGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: CGTTGGCCGAAGAAGAGGAGAAGCGAAGCAA-GCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211439279|gb|FL284646.1|FL284646
EST:     GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211436673|gb|FL284621.1|FL284621
EST:     GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211042384|gb|FL284651.1|FL284651
EST:     GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211042385|gb|FL284652.1|FL284652
EST:     GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211439275|gb|FL284642.1|FL284642
EST:     GCGTTGGCCGAAGAAGAGGAGAAGCGAMG-AAGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
EST: gi|211436682|gb|FL284630.1|FL284630
EST:     GCGTTGGCCGAAGAAGAGGAGAAGCG-A-MRAGCAGGCTTCGAGAACAAG                         GGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG
genomic: GCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatc ... gctgctgcagGGGGAGGGGGAGGACCAAGCGAAAGGGGGAACTAGAGCAAGATGGGCGGCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTATATATATAATACACACACTAGTGTAGTAGTGTGGAGTACTTCAATTGGCGTTGGCCGAAGAAGAGGAGAAGCGAAGCAAGCAGGCTTCGAGAACAAGgtactggatcgacagctccaagctcattccatgatttcgatctcgcttgtgtactgtactcgggcctggagcttgttctgatccgatcctgccttcctgctcggcgcccgcccgccccacttattcgattccatctcgtgttcctctgtgctgctgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG