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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtttcttatgtgttttacttgggctggagcaagcaagatctacagggtttagtttgatcgtctatttcgtttaccaacattacagGTGTACAAAGAAAACTTCACTTGGATCGTCAGCCACCGCAGAAGAGTACAAAACCGACCGAGAACAGCAATAAGCTAGCTACAAATCGGGTCCCAGCCCG

Basic information

species Zea mays
transcript GRMZM2G178822_T02
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G178822_T01 (Zea mays), 3'ss of exon 17
lower sequence: LOC_Os02g47220.2 (Oryza sativa), 3'ss of exon 16
gtatgtttcttatgtgttttacttgggctggagcaagcaagatctacagggtttagtttgatcgtctatttcgtttaccaacattacagGTGTACAAAGAAAACTTCACTTGGATCGTCAGCCACCGCAGAAGAGTACAAAACCGACCGAGAACAGCAATAAGCTAGCTACAAATCGGGTCCCAGCCCG
|||   |  |||    |||| ||         |  |||  |   |  ||| | || |||       ||||||  || ||| | || ||||||||||||||||||||||  ||||||||||| | || ||||||| || |||||| || ||||  |  ||||| ||| | || ||||| || || ||  |
gtaatatgtttaatcttttttctcaattgcttgttagcttgcattgtaggctatatttt-------tatttctctttccacc-ttccagGTGTACAAAGAAAACTTCAAATGGATCGTCAGGCGCCACAGAAGATTAAAAAACCTACTGAGAGTAATAATAAACTAACCACTAATCGAGTACCTGCAAG
















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|148999325|gb|EE036260.2|EE036260
EST:     GAAATCTCATAGCAATGCACCTGCAAAATCAAACGGTTTATCTAGGACTG                         GTGTACAAAGAAAACTTCACTTGGATCGTCAGCCACCGCAGAAGAGTACAA
genomic: GAAATCTCATAGCAATGCACCTGCAAAATCAAACGGTTTATCTAGGACTGgtatgtttct ... aacattacagGTGTACAAAGAAAACTTCACTTGGATCGTCAGCCACCGCAGAAGAGTACAA
EST: gi|60356611|gb|DN223584.1|DN223584
EST:     AAAATCAAACGGTTTATCTAGGACTG                         GTGTACAAAGAAAACTTCACTTGGATCGTCAGCCACCGCAGAAGAGTACAA
genomic: AAAATCAAACGGTTTATCTAGGACTGgtatgtttct ... aacattacagGTGTACAAAGAAAACTTCACTTGGATCGTCAGCCACCGCAGAAGAGTACAA
EST: gi|67015254|gb|CO444003.1|CO444003
EST:     GAAATCTCATAGCAATGCACCTGCAAAATCAAACGGTTTATCTAGGACTG                         GTGTACAAAGAAAACTTCACTTGGATCGTCAGCCAACGCAGAAGAGTACAA
genomic: GAAATCTCATAGCAATGCACCTGCAAAATCAAACGGTTTATCTAGGACTGgtatgtttct ... aacattacagGTGTACAAAGAAAACTTCACTTGGATCGTCAGCCACCGCAGAAGAGTACAA
EST: gi|67022700|gb|CO451449.1|CO451449
EST:     GAAATCTCATAGCAATGCACCTGCAAAATCAAACGGTTTATCTAGGACTG                         GTGTACAAAGAAAACTTCACTTGGATCGTCAGCCAACGCAGAAGAGTACAA
genomic: GAAATCTCATAGCAATGCACCTGCAAAATCAAACGGTTTATCTAGGACTGgtatgtttct ... aacattacagGTGTACAAAGAAAACTTCACTTGGATCGTCAGCCACCGCAGAAGAGTACAA
EST: gi|67018282|gb|CO447031.1|CO447031
EST:     GAAATCTCATAGCAATGCACCTGCAAAATCAAACGGTTTATCTAGGACTG                         GTGTACAAAGAAAACTTCACTTGGATCGTCAGCCAACGCAGAAGAGTACAA
genomic: GAAATCTCATAGCAATGCACCTGCAAAATCAAACGGTTTATCTAGGACTGgtatgtttct ... aacattacagGTGTACAAAGAAAACTTCACTTGGATCGTCAGCCACCGCAGAAGAGTACAA
EST: gi|71311110|gb|DR791868.1|DR791868
EST:     GAAATCTCATAGCAATGCACCTGCAAAATCAAACGGTTTATCTAGGACTG                         GTGTACAAAGAAAACTTCACTTGGATCGTCAGCCACCGCAGAAGAGTACAA
genomic: GAAATCTCATAGCAATGCACCTGCAAAATCAAACGGTTTATCTAGGACTGgtatgtttct ... aacattacagGTGTACAAAGAAAACTTCACTTGGATCGTCAGCCACCGCAGAAGAGTACAA
EST: gi|28188021|gb|CB179631.1|CB179631
EST:     GAAATCTCATAGCAATGCACCTGCAAAATCAAACGGTTTATCTAGGACTG                         GTGTACAAAGAAAACTTCACTTGGATCGTCAGCCACCGCAGAAGAGTACAA
genomic: GAAATCTCATAGCAATGCACCTGCAAAATCAAACGGTTTATCTAGGACTGgtatgtttct ... aacattacagGTGTACAAAGAAAACTTCACTTGGATCGTCAGCCACCGCAGAAGAGTACAA
EST: gi|6269998|gb|AW157969.1|AW157969
EST:     GAAATCTCATAGCAATGCACCTGCAAAATCAAACGGTTTATCTAGGACTG                         GTGTACAAAGAAAACTTCACTTGGATCGTCAGCCAACGCAGAAGAGTACAA
genomic: GAAATCTCATAGCAATGCACCTGCAAAATCAAACGGTTTATCTAGGACTGgtatgtttct ... aacattacagGTGTACAAAGAAAACTTCACTTGGATCGTCAGCCACCGCAGAAGAGTACAA
EST: gi|24768245|gb|CA403374.1|CA403374
EST:     GAAATCTCATAGCAATGCACCTGCAAAATCAAACGGTTTATCTAGGACTG                         GTGTACAAAGAAAACTTCACTTGGATCGTCAGCCAACGCAGAAGAGTACAA
genomic: GAAATCTCATAGCAATGCACCTGCAAAATCAAACGGTTTATCTAGGACTGgtatgtttct ... aacattacagGTGTACAAAGAAAACTTCACTTGGATCGTCAGCCACCGCAGAAGAGTACAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagcaagatctacagggtttagtttgatcgtctatttcgtttaccaacattacagGTGTACAAAGAAAACTTCACTTGGATCGTCAGCCACCGCAGAAGAGTACAAAACCGACCGAGAACAGCAATAAGCTAGCTACAAATCGGGTCCCAGCCCG
                     gtttgat  putative branch site (score: 5)
                 tttagttt  TA-rich tract