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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtgtttgatatcaacaaagaaatcttgaatgcaatttgtttatgatactgagagggtacaaaatttcagATGAATTGAAGGATCACTTTTCATCATATGGTAATGTGGTTGAACATCAGATAATGCTTGATCATAGCACTGGGCGTTCTAGAGGGTTTGGTTTTATCAC

Basic information

species Zea mays
transcript GRMZM2G139643_T04
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G139643_T05 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os02g12850.1 (Oryza sativa), 3'ss of exon 5
gtaggtgtttgatatcaacaaagaaatcttgaatgcaatttgtttatgat----actgagagggtacaaaatttcagATGAATTGAAGGATCACTTTTCATCATATGGTAATGTGGTTGAACATCAGATAATGCTTGATCATAGCACTGGGCGTTCTAGAGGGTTTGGTTTTATCAC
|||  | || ||  |  | | | ||||||| || |   | |  |||  ||    ||||| | | ||  |||||| |||||| |||| ||| ||||| ||  ||||||||||  | ||||||||||| ||||||||||||||||||||||||||||||||||| ||||||||| ||||
gtacttattagacttacagataaaaatcttcaacgatttgtagttacaatgaaaactgacaagatattaaattttagATGAGTTGAGGGAGCACTTCTCCCCATATGGTAAGATTGTTGAACATCAAATAATGCTTGATCATAGCACTGGGCGTTCTAGAGGATTTGGTTTTGTCAC
















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|50336822|gb|CO531948.1|CO531948
EST:     TAAGACAAGAAAGATCTTCATCGGTGGGCTACCGCCATCTCTTACTGAAG                         ATGAATTGAAGGATCACTTTTCATCATA
genomic: TAAGACAAGAAAGATCTTCATCGGTGGGCTACCGCCATCTCTTACTGAAGgtaggtgttt ... aaaatttcagATGAATTGAAGGATCACTTTTCATCATA
EST: gi|76014054|gb|DT941224.1|DT941224
EST:     TAAGACAAGAAAGATCTTCATCGGTGGGCTACCGCCATCTCTTACTGAAG                         ATGAATTGAAGGATCACTTTTCATCATATGGTAATGTGGTTGAACATCAGA
genomic: TAAGACAAGAAAGATCTTCATCGGTGGGCTACCGCCATCTCTTACTGAAGgtaggtgttt ... aaaatttcagATGAATTGAAGGATCACTTTTCATCATATGGTAATGTGGTTGAACATCAGA
EST: gi|71417068|gb|DR803915.1|DR803915
EST:     TAAGACAAGAAAGATCTTCATCGGTGGGCTACCGCCATCTCTTACTGAAG                         ATGAATTGAAGGATCACTTTTCATCATATGGTAATGTGGTTGAACATCAGA
genomic: TAAGACAAGAAAGATCTTCATCGGTGGGCTACCGCCATCTCTTACTGAAGgtaggtgttt ... aaaatttcagATGAATTGAAGGATCACTTTTCATCATATGGTAATGTGGTTGAACATCAGA
EST: gi|30088355|gb|CB886560.1|CB886560
EST:     TAAGACAAGAAAGATCTTCATCGGTGGGCTACCGCCATCTCTTACTGAAG                         ATGAATTGAAGGATCACTTTTCATCATATGGTAATGTGGTTGAACATCAGA
genomic: TAAGACAAGAAAGATCTTCATCGGTGGGCTACCGCCATCTCTTACTGAAGgtaggtgttt ... aaaatttcagATGAATTGAAGGATCACTTTTCATCATATGGTAATGTGGTTGAACATCAGA
EST: gi|76282448|gb|DV022016.1|DV022016
EST:     TAAGACAAGAAAGATCTTCATCGGTGGGCTACCGCCATCTCTTACTGAAG                         ATGAATTGAAGGATCACTTTTCATCATATGGTAATGTGGTTGAACATCAGA
genomic: TAAGACAAGAAAGATCTTCATCGGTGGGCTACCGCCATCTCTTACTGAAGgtaggtgttt ... aaaatttcagATGAATTGAAGGATCACTTTTCATCATATGGTAATGTGGTTGAACATCAGA
EST: gi|71768840|gb|DR966777.1|DR966777
EST:     TAAGACAAGAAAGATCTTCATCGGTGGGCTACCGCCATCTCTTACTGAAG                         ATGAATTGAAGGATCACTTTTCATCATATGGTAATGTGGTTGAACATCAGA
genomic: TAAGACAAGAAAGATCTTCATCGGTGGGCTACCGCCATCTCTTACTGAAGgtaggtgttt ... aaaatttcagATGAATTGAAGGATCACTTTTCATCATATGGTAATGTGGTTGAACATCAGA
EST: gi|71446122|gb|DR827172.1|DR827172
EST:     TAAGACAAGAAAGATCTTCATCGGTGGGCTACCGCCATCTCTTACTGAAG                         ATGAATTGAAGGATCACTTTTCATCATATGGTAATGTGGTTGAACATCAGA
genomic: TAAGACAAGAAAGATCTTCATCGGTGGGCTACCGCCATCTCTTACTGAAGgtaggtgttt ... aaaatttcagATGAATTGAAGGATCACTTTTCATCATATGGTAATGTGGTTGAACATCAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaagaaatcttgaatgcaatttgtttatgatactgagagggtacaaaatttcagATGAATTGAAGGATCACTTTTCATCATATGGTAATGTGGTTGAACATCAGATAATGCTTGATCATAGCACTGGGCGTTCTAGAGGGTTTGGTTTTATCAC
                  aatttgtttatgata  TA-rich tract