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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatattttccctgctgtgctcttacttgttctgaatggtgctaattattttcagtgctccatactatcattttatattttcttaaaaaatatctcttgcgtgatgtatcatagGCATCTCAAGGTGACCTAGTGACTGGAATGTTTTGTTGGGCTCATTTCCTGTTTCCCACACTGTGTGCTAAGCCAAGTGGGAATCCCCAGACGAGAGATT

Basic information

species Oryza sativa
transcript LOC_Os01g03760.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g03760.2 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G121683_T01 (Zea mays), 3'ss of exon 4
gtatattttccctgctgtgctcttacttgttctgaatggtgctaattattttcagtgctccat-actatcatt-ttatattttcttaaaaaatatctcttgcgtgatgtatcatagGCATCTCAAGGTGACCTAGTGACTGGAATGTTTTGTTGGGCTCATTTCCTGTTTCCCACACTGTGTGCTAAGCCAAGTGGGAATCCCCAGACGAGAGATT
   || | ||    ||| || | |  |||| ||   |  | || ||  ||| || | ||  |  | | | ||  ||||||||| ||   |   ||   || | ||||| |    |||| |||||||||||||||||| |||| |||||||| ||||||||||  || ||||||||| | ||||| ||| |||||||||||||||   | |||||||
--gtactctcttccctg-gcacct--ttgtgctagttactacttatgctttccaattctttaccatttttataattatattttttttgtaccaattcttttc-tgatgcactgcagGCCTCTCAAGGTGACCTAGTGTCTGGCATGTTTTGCTGGGCTCATTCTCTATTTCCCACATTATGTGCGAAGTCAAGTGGGAATCCCCTTGCAAGAGATT

upper sequence: LOC_Os01g03760.2 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G155709_T01 (Zea mays), 3'ss of exon 4
gtatattttccctgctgtgctcttacttgttctgaatggtgctaattattttcagtgctccatact---atcattttatattttcttaaaaaatatctcttgcgtgatgtatcatagGCATCTCAAGGTGACCTAGTGACTGGAATGTTTTGTTGGGCTCATTTCCTGTTTCCCACACTGTGTGCTAAGCCAAGTGGGAATCCCCAGACGAGAGATT
               |   || |||| ||  |    | |||||| ||| ||    | | | ||  |   | ||||||||| |||  |   |   ||   || | |     |||  |||||||||||||||||||||||||||| |||||||| ||||||||||| || ||||||||  | ||||| |||||||||||||||||||   | |||||||
--------------gtactcttttacctgg-cacctttgtgctagttacttgtgcttcccaatttttttaccattttataattttgttgtaccaattcttttctt-----atcgcagGCATCTCAAGGTGACCTAGTGACTGGCATGTTTTGCTGGGCTCATTTTCTATTTCCCACGTTATGTGCGAAGCCAAGTGGGAATCCCCTTGCAAGAGATT
















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|29645275|gb|CB650282.1|CB650282
EST:     AGTATCTTGGGCAGGAAAAGCTTCCAATCATTGTTTGGGTTATTGCTCAG                         GCATCTCAAGGTGACCTAGTGACTGGAATGTTTTGTTGGGCTCATTTCCTG
genomic: AGTATCTTGGGCAGGAAAAGCTTCCAATCATTGTTTGGGTTATTGCTCAGgtatattttc ... tgtatcatagGCATCTCAAGGTGACCTAGTGACTGGAATGTTTTGTTGGGCTCATTTCCTG
EST: gi|40493511|gb|BX900802.1|BX900802
EST:     AGTATCTTGGGCAGGAAAAGCTTCCAATCATTGTTTGGGTTATTGCTCAG                         GCATCTCAAGGTGACCTAGTGACTGGAATGTTTTGTTGGGCTCATTTCCTG
genomic: AGTATCTTGGGCAGGAAAAGCTTCCAATCATTGTTTGGGTTATTGCTCAGgtatattttc ... tgtatcatagGCATCTCAAGGTGACCTAGTGACTGGAATGTTTTGTTGGGCTCATTTCCTG
EST: gi|29645235|gb|CB650242.1|CB650242
EST:     AGTATCTTGGGCAGGAAAAGCTTCCAATCATTGTTTGGGTTATTGCTCAG                         GCATCTCAAGGTGACCTAGTGACTGGAATGTTTTGTTGGGCTCATTTCCTG
genomic: AGTATCTTGGGCAGGAAAAGCTTCCAATCATTGTTTGGGTTATTGCTCAGgtatattttc ... tgtatcatagGCATCTCAAGGTGACCTAGTGACTGGAATGTTTTGTTGGGCTCATTTCCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccatactatcattttatattttcttaaaaaatatctcttgcgtgatgtatcatagGCATCTCAAGGTGACCTAGTGACTGGAATGTTTTGTTGGGCTCATTTCCTGTTTCCCACACTGTGTGCTAAGCCAAGTGGGAATCCCCAGACGAGAGATT
      tatcattttatatttt  TA-rich tract