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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCACTGTTTCCGGGAGAGAGTGCTGTTGATCAGTTGGTAGAGATTATCAAGgtactgcaaaatgttccaaagtagacattctattcttctaccggggtgtttcttatggttatgtgatgtgcctgtag

Basic information

species Zea mays
transcript GRMZM2G472625_T01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G472625_T02 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os01g10840.1 (Oryza sativa), 5'ss of exon 8
CCACTGTTTCCGGGAGAGAGTGCTGTTGATCAGTTGGTAGAGATTATCAAGgtactgcaaaatgttccaaagtagacattctattcttctaccggggtgtttcttatggttatgtgatgtgcctgtag
||||||||||| ||||||||||||||||| ||| | |||||||| ||||||||| ||||  |||||    |    ||||| | || ||   |  |||| |||||| || | |  |||| |    | ||
CCACTGTTTCCTGGAGAGAGTGCTGTTGACCAGCTAGTAGAGATAATCAAGgtattgcatgatgttgtgcaagctacatttttttttttgccacgggtatttcttgtgttaacttgatattatggcag
















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|211080741|gb|FL326809.1|FL326809
EST:     CACTGTTTCCGGGAGAGAGTGCTGTTGATCAGTTGGTAGAGATTATCAAG                         GTTCTTGGTACTCCAACCCGTGAGGAGATACGATGCATGAATCCCAACTAT
genomic: CACTGTTTCCGGGAGAGAGTGCTGTTGATCAGTTGGTAGAGATTATCAAGgtactgcaaa ... gtgcctgtagGTTCTTGGTACTCCAACCCGTGAGGAGATACGATGCATGAATCCCAACTAT
EST: gi|211442652|gb|FL343508.1|FL343508
EST:     CACTGTTTCCGGGAGAGAGTGCTGTTGATCAGTTGGTAGAGATTATCAAG                         GTTCTTGGTACTCCAACCCGTGAGGAGATACGATGCATGAATCCCAACTAT
genomic: CACTGTTTCCGGGAGAGAGTGCTGTTGATCAGTTGGTAGAGATTATCAAGgtactgcaaa ... gtgcctgtagGTTCTTGGTACTCCAACCCGTGAGGAGATACGATGCATGAATCCCAACTAT
EST: gi|6587591|gb|AW244909.1|AW244909
EST:     CACTGTTTCCGGGAGAGAGTGCTGTTGATCAGTTGGTAGAGATTATCAAG                         GTTCTTGGTACTCCAACCCGTGAGGAGATACGATGCATGAATCCCAACTAT
genomic: CACTGTTTCCGGGAGAGAGTGCTGTTGATCAGTTGGTAGAGATTATCAAGgtactgcaaa ... gtgcctgtagGTTCTTGGTACTCCAACCCGTGAGGAGATACGATGCATGAATCCCAACTAT
EST: gi|60351318|gb|DN218291.1|DN218291
EST:     CACTGTTTCCGGGAGAGAGTGCTGTTGATCAGTTGGTAGAGATTATCAAG                         GTTCTTGGTACTCCAACCCGTGAGGAGATACGATGCATGAATCCCAACTAT
genomic: CACTGTTTCCGGGAGAGAGTGCTGTTGATCAGTTGGTAGAGATTATCAAGgtactgcaaa ... gtgcctgtagGTTCTTGGTACTCCAACCCGTGAGGAGATACGATGCATGAATCCCAACTAT
EST: gi|211096380|gb|FL340966.1|FL340966
EST:     CTGTTGATCAGTTGGTAGAGATTATCAAG                         GTTCTTGGTACTCCAACCCGTGAGGAGATACGATGCATGAATCCCAACTAT
genomic: CTGTTGATCAGTTGGTAGAGATTATCAAGgtactgcaaa ... gtgcctgtagGTTCTTGGTACTCCAACCCGTGAGGAGATACGATGCATGAATCCCAACTAT
EST: gi|211467509|gb|FL214418.1|FL214418
EST:     CACTGTTTCCGGGAGAGAGTGCTGTTGATCAGTTGGTAGAGATTATCAAG                         GTTCTTGGTACTCCAACCCGTGAGGAGATACGATGCATGAATCCCAACTAT
genomic: CACTGTTTCCGGGAGAGAGTGCTGTTGATCAGTTGGTAGAGATTATCAAGgtactgcaaa ... gtgcctgtagGTTCTTGGTACTCCAACCCGTGAGGAGATACGATGCATGAATCCCAACTAT
EST: gi|22472815|gb|BU037295.1|BU037295
EST:     CACTGTTTCCGGGAGAGAGTGCTGTTGATCAGTTGGTAGAGATTATCAAG                         GTTCTTGGTACTCCAACCCGTGAGGAGATACGATGCATGAATCCCAACTAT
genomic: CACTGTTTCCGGGAGAGAGTGCTGTTGATCAGTTGGTAGAGATTATCAAGgtactgcaaa ... gtgcctgtagGTTCTTGGTACTCCAACCCGTGAGGAGATACGATGCATGAATCCCAACTAT
EST: gi|6696036|gb|AW289144.1|AW289144
EST:     CACTGTTTCCGGGAGAGAGTGCTGTTGATCAGTTGGTAGAGATTATCAAG                         GTTCTTGGTACTCCAACCCGTGAGGAGATACGATGCATGAATCCCAACTAT
genomic: CACTGTTTCCGGGAGAGAGTGCTGTTGATCAGTTGGTAGAGATTATCAAGgtactgcaaa ... gtgcctgtagGTTCTTGGTACTCCAACCCGTGAGGAGATACGATGCATGAATCCCAACTAT
EST: gi|22819171|gb|BU499261.1|BU499261
EST:     CACTGTTTCCGGGAGAGAGTGCTGTTGATCAGTTGGTAGAGATTATCAAG                         GTTCTTGGTACTCCAACCCGTGAGGAGATACGATGCATGAATCCCAACTAT
genomic: CACTGTTTCCGGGAGAGAGTGCTGTTGATCAGTTGGTAGAGATTATCAAGgtactgcaaa ... gtgcctgtagGTTCTTGGTACTCCAACCCGTGAGGAGATACGATGCATGAATCCCAACTAT
EST: gi|7145412|gb|AW506893.1|AW506893
EST:     CACTGTTTCCGGGAGAGAGTGCTGTTGATCAGTTGGTAGAGATTATCAAG                         GTTCTTGGTACTCCAACCCGTGAGGAGATACGATGCATGAATCCCAACTAT
genomic: CACTGTTTCCGGGAGAGAGTGCTGTTGATCAGTTGGTAGAGATTATCAAGgtactgcaaa ... gtgcctgtagGTTCTTGGTACTCCAACCCGTGAGGAGATACGATGCATGAATCCCAACTAT
EST: gi|149108728|gb|EE189804.2|EE189804
EST:     TTTCCGGGAGAGAGTGCTGTTGATCAGTTGGTAGAGATTATCAAG                         GTTCTTGGTACTCCAACCCGTGAGGAGATACGATGCATGAATCCCAACTAT
genomic: TTTCCGGGAGAGAGTGCTGTTGATCAGTTGGTAGAGATTATCAAGgtactgcaaa ... gtgcctgtagGTTCTTGGTACTCCAACCCGTGAGGAGATACGATGCATGAATCCCAACTAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCACTGTTTCCGGGAGAGAGTGCTGTTGATCAGTTGGTAGAGATTATCAAGgtactgcaaaatgttccaaagtagacattctattcttctaccggggtgtttcttatggttatgtgatgtgcctgtag

- - - - - - - - - -  GCTGTT