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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gctgaattctgtacttggattcatgctcttgttcatcttggggacttagggaacctatcaggggaaagtttctcataaatttcctctgttttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATCATATCGTCCTGGGGACATTGTTAAAGCTATGGTTGTATCCTTAATTGAC

Basic information

species Zea mays
transcript GRMZM5G841900_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G841900_T04 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g57070.2 (Oryza sativa), 3'ss of exon 3
---------------------------------------------------------------------------------gctgaattctgtacttggattc--atgctcttgttcatcttggggacttagggaacctatcaggggaaagtttctcataaatttcctctgttt---tacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATCATATCGTCCTGGGGACATTGTTAAAGCTATGGTTGTATCCTTAATTGAC
                                                                                 | |         | ||  | ||  |||||| || |   | |  |  | |     || |||||    ||||||  ||||   |   || || |    |   || ||||||||||||||||||||||||||||| ||||||||||||||||  || ||||| || ||||| || ||||| | |||  |||||||||||||||  |  
gtacgggttctgttttctttgctgatatgcttccatttaaacctttttcagggatctcttgtattgcttcgctttgagtcagttaccaaacacatttacaatccaatgctcctgcttgccatatgttccttttagac-tatcacaacaaagttcttcatggttcagctatgctcctctgtttgtagGCAGCAAGATGTTCGTGCAACTGAAATCGACAAGGTGGATATGTTTCAGTCATACCGACCTGGTGATATTGTCAGAGCCCTGGTTGTATCCTTAAGGGGA

upper sequence: GRMZM5G841900_T04 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g57070.1 (Oryza sativa), 3'ss of exon 3
---------------------------------------------------------------------------------gctgaattctgtacttggattc--atgctcttgttcatcttggggacttagggaacctatcaggggaaagtttctcataaatttcctctgttt---tacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATCATATCGTCCTGGGGACATTGTTAAAGCTATGGTTGTATCCTTAATTGAC
                                                                                 | |         | ||  | ||  |||||| || |   | |  |  | |     || |||||    ||||||  ||||   |   || || |    |   || ||||||||||||||||||||||||||||| ||||||||||||||||  || ||||| || ||||| || ||||| | |||  |||||               
gtacgggttctgttttctttgctgatatgcttccatttaaacctttttcagggatctcttgtattgcttcgctttgagtcagttaccaaacacatttacaatccaatgctcctgcttgccatatgttccttttagac-tatcacaacaaagttcttcatggttcagctatgctcctctgtttgtagGCAGCAAGATGTTCGTGCAACTGAAATCGACAAGGTGGATATGTTTCAGTCATACCGACCTGGTGATATTGTCAGAGCCCTGGTT---------------
















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|148939988|gb|EC884719.2|EC884719
EST:     ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG                         GCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
genomic: ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
EST: gi|50328543|gb|CO523669.1|CO523669
EST:     ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG                         GCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
genomic: ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
EST: gi|211118861|gb|FL110176.1|FL110176
EST:     ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG                         GCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
genomic: ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
EST: gi|76012394|gb|DT939564.1|DT939564
EST:     ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG                         GCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
genomic: ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
EST: gi|32796285|gb|CD948521.1|CD948521
EST:     ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG                         GCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
genomic: ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
EST: gi|74244670|gb|DT652584.1|DT652584
EST:     ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG                         GCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
genomic: ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
EST: gi|71428020|gb|DR809070.1|DR809070
EST:     ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG                         GCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
genomic: ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
EST: gi|166676501|gb|EG058226.1|EG058226
EST:     AGAAAAGTTCACTGGCATGATAAG                         GCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAAAT
genomic: AGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAA-T


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttagggaacctatcaggggaaagtttctcataaatttcctctgttttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATCATATCGTCCTGGGGACATTGTTAAAGCTATGGTTGTATCCTTAATTGAC
                                  tttcctctgttttacc  CT-rich tract
                       tttctcataaattt  TA-rich tract