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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGTAGTGGGCCTCAGCGAAGAACAGGCCTTGGAGGAAGCTAATGGTGATATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatagtagagcatgcctgttagattttcttgtctgctccatttgcaggcttacaccctgtgagctctgacatatatgtcttgtaccacatccaaagatctgactgttccctgttttcttcagtcatgcgctctgctttgtagtttctatatctcctatagaagtttgtaattcggtctatgttttcag

Basic information

species Zea mays
transcript GRMZM5G806449_T02
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G806449_T03 (Zea mays), 5'ss of exon 14
lower sequence: LOC_Os02g56850.1 (Oryza sativa), 5'ss of exon 14
CTGTAGTGGGCCTCAGCGAAGAACAGGCCTTGGAGGAAGCTAATGGTGATATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatagtagagcatgcctgttagattttcttgtctgctccatttgcaggcttacaccctgtgagctctgacatatatgtcttgtaccacatccaaagatctgactgttcc-ctgttttcttcagtcatgcgctctgctttgtagtttctatatctcctatagaagtttgtaattcggtctatgttttcag
| ||||||||| | || ||| | ||||| ||||||||||| ||  | ||| ||||||||| ||  ||    |||||||||||||||||||||||||||||||||| ||       ||||  | ||  |   ||   |||| | | |   ||   |||||||   |||   ||||       ||  | || ||| |  || | ||||  | || |  | |||||                                                                       
CAGTAGTGGGCTTGAGTGAACAGCAGGCTTTGGAGGAAGCCAAGAGCGATGTTCTTGTTTACACTTCCAGCTTCAACCCAATGAAGAACAGCATATCCAAgtaagtat-------catgtttattgcaagatc--atctgttacgt---catagttacacc---tgactcctga-------gtgctttatcac-ttgaaggttctgggtatttcattattttc-----------------------------------------------------------------------
















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|19350945|gb|BM895477.1|BM895477
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|76293304|gb|DV032872.1|DV032872
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|19350946|gb|BM895478.1|BM895478
EST:     ATTCTTGTTTTCATCACATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|32845839|gb|CD985520.1|CD985520
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|37378953|gb|CF626201.1|CF626201
EST:     CTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: CTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|211368053|gb|FL471715.1|FL471715
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|47961792|gb|CN844501.1|CN844501
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|58030045|gb|CX725472.1|CX725472
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|37380707|gb|CF627182.1|CF627182
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|14646262|gb|BI180451.1|BI180451
EST:     AGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: AGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|37395251|gb|CF634905.1|CF634905
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|71757895|gb|DR955832.1|DR955832
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|76012766|gb|DT939936.1|DT939936
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|16916633|gb|BM072928.1|BM072928
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|110942635|gb|EE162792.1|EE162792
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|31405874|gb|CD484606.1|CD484606
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|91056621|gb|EB167039.1|EB167039
EST:     ATTCTTGTTTTCATTTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|56382549|gb|CV985218.1|CV985218
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|71310532|gb|DR791561.1|DR791561
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|37381448|gb|CF627611.1|CF627611
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|6095693|gb|AW120360.1|AW120360
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|67025835|gb|CO454584.1|CO454584
EST:     TTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: TTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|31664369|gb|CD573094.1|CD573094
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|37377035|gb|CF625088.1|CF625088
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|14243079|gb|BG840745.2|BG840745
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|16927664|gb|BM080733.1|BM080733
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|31664100|gb|CD573280.1|CD573280
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|32939543|gb|CF044362.1|CF044362
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|30088227|gb|CB886432.1|CB886432
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|31611972|gb|CD568594.1|CD568594
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|148937230|gb|EC881412.2|EC881412
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|71311903|gb|DR792430.1|DR792430
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|45847417|gb|CN071360.1|CN071360
EST:     ATTCTTGTTTTCATCTCATCGTTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|149077607|gb|EE166307.2|EE166307
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
EST: gi|6031612|gb|AI668515.2|AI668515
EST:     ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAA                         GCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA
genomic: ATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatag ... atgttttcagGCGCCAGGAGAAGACTATCATGAAACTGGTAGTTGATGCTGAAACTGACAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTGTAGTGGGCCTCAGCGAAGAACAGGCCTTGGAGGAAGCTAATGGTGATATTCTTGTTTTCATCTCATCATTCAACCCAATGAAGAACAGCATATCCAAgtaagcatagtagagcatgcctgttagattttcttgtctgctccatttgcaggcttacaccctgtgagctctgacatatatgtcttgtaccacatccaaagatctgactgttccctgttttcttcagtcatgcgctctgctttgtagtttctatatctcctatagaagtttgtaattcggtctatgttttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC