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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAGCAAGATCGCTTGCAATCGGCTGCAGAAGGAGCTCGCCGAGTGGCAGGTCAGCCCTCCCTCCGGGTTCAAGTACAGGGTCTCCGATAACCTCCAAAGgtcgtcatcttgtcttctactggttgatttcttgtttcttctcctgtggatgaaccgcgggatcccatcttacaattgattccttttcttttcttgactgtatatgttcttgattttggggatttttggtgggtttttattattagtattgttgttaatctgtggagatggattcgtacgattcgcctaatag

Basic information

species Oryza sativa
transcript LOC_Os12g44000.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g44000.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G018447_T01 (Zea mays), 5'ss of exon 2
TGAGCAAGATCGCTTGCAATCGGCTGCAGAAGGAGCTCGCCGAGTGGCAGGTCAGCCCTCCCTCCGGGTTCAAGTACAGGGTCTCCGATAACCTCCAAAGgtcgtcatcttgtcttctactggttgatttcttgtttcttctcctgtggatgaaccgcgggatcccatct-tacaattgattccttttcttttcttgactgtatatgttcttgattttggggatttttggtgggtttttattattagtattgttgttaatctgtggagatggattcgtacgattcgcctaatag
|||||||||||||||||||||||||||||||||| ||||||||||||||  ||||||| ||  | || |||||| ||| ||||||||||||||| |||||||         | |||   |   | |  | |     || |  |   ||  |     ||    |   || | |  | ||  ||  || | ||  ||||    | | | ||||                                                                                   
TGAGCAAGATCGCTTGCAATCGGCTGCAGAAGGAACTCGCCGAGTGGCAACTCAGCCCCCCTGCTGGATTCAAGCACAAGGTCTCCGATAACCTACAAAGgtg------ccgcctttcgc--atcgcatcccgccctccttgcaattgcgt---ttgcctttttttatttatgtagttttttttttcttttgccttgttgctgtctcttct-----------------------------------------------------------------------------------

upper sequence: LOC_Os12g44000.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G007381_T01 (Zea mays), 5'ss of exon 2
TGAGCAAGATCGCTTGCAATCGGCTGCAGAAGGAGCTCGCCGAGTGGCAGGTCAGCCCTCCCTCCGGGTTCAAGTACAGGGTCTCCGATAACCTCCAAAGgtcgtcatcttgtcttctactggttgatttcttgtttcttctcctgtggatgaaccgcgggatcccatcttacaattgattccttttcttttcttgactgtatatgttcttgattttggggatttttggtgggtttttattattagtattgttgttaatctgtggagatggattcgtacgattcgcctaatag
||||||||||||||||||||||||||||||| ||||||||||||||||||   | ||| |||  |||||||||| ||| ||||||||||||||||||||||| | |  |||        ||  | |  | | |    |    ||||    |   || |         | ||    |||  || |||  ||||| |   | | |  ||  ||  |||                                                                             
TGAGCAAGATCGCTTGCAATCGGCTGCAGAAAGAGCTCGCCGAGTGGCAGCAAAACCCCCCCGTCGGGTTCAAGCACAAGGTCTCCGATAACCTCCAAAGgt-gccgcctt-------tctcatcgtatccctcccgccctccctgcaatt---cctca----tttttgttgtgtttg--tcttttctttttcgtatttatgtgggtattttttttc----------------------------------------------------------------------------

upper sequence: LOC_Os12g44000.1 (Oryza sativa), 5'ss of exon 2
lower sequence: Vv04s0023g02620.t01 (Vitis vinifera), 5'ss of exon 2
TGAGCAAGATCGCTTGCAATCGGCTGCAGAAGGAGCTCGCCGAGTGGCAGGTCAGCCCTCCCTCCGGGTTCAAGTACAGGGTCTCCGATAACCTCCAAAGgtcgtcatcttgtcttctactggttgatttcttgtttcttctcctgtggatgaaccgcgggatcccatcttacaattgattccttttcttttcttgactgtatatgttcttgattttggggatttttggtgggtttttattattagtattgttgttaatctgtggagatggattcgtacgattcgcctaatag
| ||||| ||||||||||||||||| ||||| ||||| |  |||||||||||||  || ||| |||| |||||  |||  ||| |||| || || |||||||| |    || |     | |  |   |||        ||    | |||  ||| || || |  |   |  | ||   |      |     |||  | | | |                                                                                          
TTAGCAAAATCGCTTGCAATCGGCTCCAGAAAGAGCTTGTTGAGTGGCAGGTCAATCCACCCGCCGGTTTCAAACACAAAGTCACCGACAATCTTCAAAGgtcttttctttttagatcaattatctttttacctccgtttggtttctgggagaaacgtggaaaacggacgaagaaaaaaaagacatga---tctaaattttgt------------------------------------------------------------------------------------------

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|163920049|gb|EG709843.1|EG709843
EST:     GTCAGCCCTCCCTCCGGGTTCAAGTACAGGGTCTCCGATAACCTCCAAAG                         GTGGGTAATCGAGGTCACCGGAGCGGCGGGCACGCTCTACGCCGGCGAGAC
genomic: GTCAGCCCTCCCTCCGGGTTCAAGTACAGGGTCTCCGATAACCTCCAAAGgtcgtcatct ... cgcctaatagGTGGGTAATCGAGGTCACCGGAGCGGCGGGCACGCTCTACGCCGGCGAGAC
EST: gi|8857593|gb|AU094911.1|AU094911
EST:     GTCAGCCCT-CCTCCGGGTTCAAGTACAGGGTCTCCGATAACCTCCAAAG                         GTGGGTAATCGAGGTCACCGGAGCGGCGGGCACGCTCTACGCCGGCGAGAC
genomic: GTCAGCCCTCCCTCCGGGTTCAAGTACAGGGTCTCCGATAACCTCCAAAGgtcgtcatct ... cgcctaatagGTGGGTAATCGAGGTCACCGGAGCGGCGGGCACGCTCTACGCCGGCGAGAC
EST: gi|58593809|gb|CF992117.1|CF992117
EST:     GTCAGCCCTCCCTCCGGGTTCAAGTACAGGGTCTCCGATAACCTCCAAAG                         GTGGGTAATCGAGGTCACCGGAGCGGGGGGCACGCTCTACGCCGGCGAGAC
genomic: GTCAGCCCTCCCTCCGGGTTCAAGTACAGGGTCTCCGATAACCTCCAAAGgtcgtcatct ... cgcctaatagGTGGGTAATCGAGGTCACCGGAGCGGCGGGCACGCTCTACGCCGGCGAGAC
EST: gi|8857008|gb|AU094326.1|AU094326
EST:     TCAGCCCTCCTTCCGGGTNCAAG-ACAGGGTCTCCGAT-ACCNTCCAAAG                         GTGGGTAATCGAGGTCACCGGAGCGNCGGGCACGCTCTACGCCGGCGAGA
genomic: TCAGCCCTCCCTCCGGGTTCAAGTACAGGGTCTCCGATAACC-TCCAAAGgtcgtcatct ... cgcctaatagGTGGGTAATCGAGGTCACCGGAGCGGCGGGCACGCTCTACGCCGGCGAGA
EST: gi|5851049|gb|AU078221.1|AU078221
EST:     GTCAGCCCT-CCTCCGGGTTCAAGTACAGGGTCTCCGATAACCTCCAAAG                         GTGGGTAATCGAGGTCACCGGAGCGGCGGGCACGCTCTACGCCGGCGAGAC
genomic: GTCAGCCCTCCCTCCGGGTTCAAGTACAGGGTCTCCGATAACCTCCAAAGgtcgtcatct ... cgcctaatagGTGGGTAATCGAGGTCACCGGAGCGGCGGGCACGCTCTACGCCGGCGAGAC
EST: gi|8856902|gb|AU094220.1|AU094220
EST:     CGGGTTCCAAGTACAGGGTCTCCGATAACCTCCAAAG                         GTGGGTAATCGAGGTCACCGGAGCGGCGGGCACGCTNTACGCCGGCGAGAC
genomic: CGGGTT-CAAGTACAGGGTCTCCGATAACCTCCAAAGgtcgtcatct ... cgcctaatagGTGGGTAATCGAGGTCACCGGAGCGGCGGGCACGCTCTACGCCGGCGAGAC