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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttttgtgaccgaaaaattgtgttagtggtagcatgtcttttaacactgacctattgttcattattatctatatttatgatcgtatagttgttgccttagGTTGACGGGTTCAGATTTGATCTAATGGGACATATCATGAAAAAGACAATG

Basic information

species Zea mays
transcript GRMZM2G158043_T02
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G158043_T01 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os04g08270.1 (Oryza sativa), 3'ss of exon 5
--cttttgtgaccgaaaaat--tgtgttagtggta-gcatgtcttttaacactgacctattgttcattattatctatatttatgatcgtatagttgttgccttagGTTGACGGGTTCAGATTTGATCTAATGGGACATATCATGAAAAAGACAATG
  ||   ||| |  || |||    ||||  || |   ||||||||  ||    |  ||    || |||||| |  || || |  ||  |||| || ||| | |||||||| ||||||||||||||||| ||||| |||||||||||||  || |||
ttctgaagtgtcaaaacaatctcatgtttatgttttacatgtcttccaa----gtgctgcactttattattctgcatcttaacaattatata-ttcttgtcgtagGTTGATGGGTTCAGATTTGATCTTATGGGGCATATCATGAAAAGTACCATG

upper sequence: GRMZM2G158043_T01 (Zea mays), 3'ss of exon 13
lower sequence: EFJ34076 (Selaginella moellendorffii), 3'ss of exon 12
cttttgtgaccgaaaaattgtgttagtggtagcatgtcttttaacactgacctattgttcattattatctatatttatgatcgtatagttgttgccttagGTTGACGGGTTCAGATTTGATCTAATGGGACATATCATGAAAAAGACAATG
                                       | |   |     || | ||| ||| ||| |      | ||||||             |||||| ||||||||||| || || || |||||||||||||||||||  || |||
--------------------------------------gtctggaatctgtctttcgtttattcttaccgtcgcct-tgatcg----------atgttagGTGGACGGGTTCAGGTTCGACCTTATGGGACATATCATGAAAAGAACTATG

upper sequence: GRMZM2G158043_T01 (Zea mays), 3'ss of exon 13
lower sequence: EFJ37579 (Selaginella moellendorffii), 3'ss of exon 12
cttttgtgaccgaaaaattgtgttagtggtagcatgtcttttaacactgacctattgttcattattatctatatttatgatcgtatagttgttgccttagGTTGACGGGTTCAGATTTGATCTAATGGGACATATCATGAAAAAGACAATG
                                       | |   |     || | ||| ||| ||| |      | ||||||              ||||| ||||||||||| || || || |||||||||||||||||||  || |||
--------------------------------------gtctggaatctgtctttcgtttattcttaccgtcgcct-tgatcg----------atgctagGTGGACGGGTTCAGGTTCGACCTTATGGGACATATCATGAAAAGAACTATG

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|60396203|gb|DN229072.1|DN229072
EST:     TTGATAGATTAATCGTGGATGACCTTCTGAATTGGGCAGTAAATTACAAA                         GTTGACGGGTTCAGATTTGATCTAATGGGACATATCATGAAAAAGACAATG
genomic: TTGATAGATTAATCGTGGATGACCTTCTGAATTGGGCAGTAAATTACAAAgtgagtcgta ... gttgccttagGTTGACGGGTTCAGATTTGATCTAATGGGACATATCATGAAAAAGACAATG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgacctattgttcattattatctatatttatgatcgtatagttgttgccttagGTTGACGGGTTCAGATTTGATCTAATGGGACATATCATGAAAAAGACAATG
                                              ttgcctt  CT-rich tract
       tattgttcattattat  TA-rich tract