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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAGGACTGGTGATCAACGTGACACGCTGAAGCATATCTACAACCTATATGTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttccctgcgaatgaaaatttgcttcacccttcggttcataacagcattagatatagctatcaggattatctcatcagaaaacaaaatgcatta...

Basic information

species Oryza sativa
transcript LOC_Os01g33020.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g33020.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G010146_T03 (Zea mays), 5'ss of exon 3
CAAGGACTGGTGATCAACGTGACACGCTGAAGCATATCTACAACCTATATGTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttccctgcg-aatgaaaatttgct-tcacccttcggttcataacagcatta--gatatagctatcaggattatctcatcagaaaacaaaatgcatta
|||||||||||||||| || ||| |||| ||||||||||||||||||||||||||||| ||||||||||||||| |||| |||||||| |||||||||||||||| |||  |     |||| ||| | | | | ||     | ||    | |  |||   | | | ||||  || |  ||    ||      |  ||       
CAAGGACTGGTGATCAGCGAGACTCGCTAAAGCATATCTACAACCTATATGTGGAATACGTTGTAAAAAATCCTCTGTATGCTCCTGGAACACCAATCAAgtaagttttttccatttaatggaaaatggttattactgcatgtttagctagaatattgttgtttttgctaagagtaaaatacattctaggtccttaaact----

upper sequence: LOC_Os01g33020.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G039373_T01 (Zea mays), 5'ss of exon 3
CAAGGACTGGTGATCAACGTGACACGCTGAAGCATATCTACAACCTATATGTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttccctgcgaatgaaaatttgcttc-acccttcggttcataacagcattag-atatagctatcaggattatctcatcagaaaacaaaatgcatta
|||||||||||||||| || ||| |||| |||||||| ||||| |||||||||||||||||||||||||||||| |||| |||||||| |||||||||||||||| ||| || |  |||| ||  ||| ||  ||     | ||    |||  |||    | |     ||   |  ||  || |    |  |  |||  |  
CAAGGACTGGTGATCAGCGAGACTCGCTAAAGCATATATACAATCTATATGTGGAATATGTTGTAAAAAATCCTCTGTATGCTCCTGGAACACCAATCAAgtaagttttaccggttaatggaacattgtttttactgcatgtttagctacaatattgttgtttttgcgtcgctaacattacaacttttagaaggatgtgt--
















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|88478239|gb|CI415510.1|CI415510
EST:     GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATC-A                         -A-GTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
genomic: GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttc ... ctttcttaagCAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
EST: gi|88832255|gb|CI017489.1|CI017489
EST:     GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAA                         --G-TGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
genomic: GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttc ... ctttcttaagCAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
EST: gi|88956108|gb|CI092396.1|CI092396
EST:     GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAA                         CAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
genomic: GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttc ... ctttcttaagCAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
EST: gi|88513510|gb|CI441016.1|CI441016
EST:     GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATC-A                         -A-GTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
genomic: GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttc ... ctttcttaagCAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
EST: gi|88968596|gb|CI098826.1|CI098826
EST:     GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATC-A                         -A-GTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
genomic: GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttc ... ctttcttaagCAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
EST: gi|88988903|gb|CI040635.1|CI040635
EST:     GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAA                         --G-TGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
genomic: GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttc ... ctttcttaagCAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
EST: gi|86520090|gb|CI160296.1|CI160296
EST:     GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATC-A                         -A-GTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
genomic: GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttc ... ctttcttaagCAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
EST: gi|87028415|gb|CI263757.1|CI263757
EST:     GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAA                         --G-TGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
genomic: GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttc ... ctttcttaagCAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
EST: gi|89168502|gb|CI038856.1|CI038856
EST:     GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATC-A                         -A-GTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
genomic: GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttc ... ctttcttaagCAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
EST: gi|88239868|gb|CI239030.1|CI239030
EST:     GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAA                         CAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACGTTGAT
genomic: GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttc ... ctttcttaagCAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
EST: gi|88479563|gb|CI416834.1|CI416834
EST:     GTGGAATATTTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATC-A                         -A-GTGCGAGCTTTTCAATAAGCACCTTGATCAATATGGTCAAAACATTGA
genomic: GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttc ... ctttcttaagCAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATAT-GTCAAAACATTGA
EST: gi|86869390|gb|CI339114.1|CI339114
EST:     GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAA                         CAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
genomic: GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttc ... ctttcttaagCAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
EST: gi|86544227|gb|CI184433.1|CI184433
EST:     GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATC-A                         -A-GTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
genomic: GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttc ... ctttcttaagCAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
EST: gi|87034968|gb|CI188771.1|CI188771
EST:     GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATC-A                         -A-GTGCGAGCTTTTCAATAAGCACCTTGATCGATATGTCAAAACATTGAT
genomic: GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttc ... ctttcttaagCAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
EST: gi|88832263|gb|CI017497.1|CI017497
EST:     GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAA                         --G-TGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
genomic: GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttc ... ctttcttaagCAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
EST: gi|163928213|gb|EG712541.1|EG712541
EST:     GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAA                         --G-TGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
genomic: GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttc ... ctttcttaagCAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
EST: gi|86869388|gb|CI339112.1|CI339112
EST:     GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAA                         CAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
genomic: GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttc ... ctttcttaagCAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
EST: gi|88663760|gb|CI486063.1|CI486063
EST:     GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATC-A                         -A-GTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
genomic: GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttc ... ctttcttaagCAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
EST: gi|88424980|gb|CI562295.1|CI562295
EST:     GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATC-A                         -A-GTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
genomic: GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttc ... ctttcttaagCAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
EST: gi|9865647|gb|AU101397.1|AU101397
EST:     GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATC-A                         -A-GTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
genomic: GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttc ... ctttcttaagCAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
EST: gi|218485437|gb|FG946454.1|FG946454
EST:     GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAA                         --G-TGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
genomic: GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttc ... ctttcttaagCAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
EST: gi|89199179|gb|CI255445.1|CI255445
EST:     GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAA                         --G-TGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
genomic: GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttc ... ctttcttaagCAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
EST: gi|218488359|gb|FG945110.1|FG945110
EST:     GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAA                         --G-TGCGAGCTTTACAATAAGCACCTTGATCAATATGTCAAAACA
genomic: GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttc ... ctttcttaagCAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACA
EST: gi|88982282|gb|CI027859.1|CI027859
EST:     GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAA                         --G-TGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
genomic: GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttc ... ctttcttaagCAGGTGCGAGCTTTTCAATAAGCACCTTGATCAATATGTCAAAACATTGAT
EST: gi|58599380|gb|CK009908.1|CK009908
EST:     GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAA                         --G-TGCGAGCTTTTCAATAAGCAC
genomic: GTGGAATATGTTGTAAAAAATCCTTTGTACGCTCCTGGCACACCAATCAAgtaagctttc ... ctttcttaagCAGGTGCGAGCTTTTCAATAAGCAC