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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttattccttccccagactccactcatgtgggagcttccggcactgggtctgtccctttttatgtatcactaatatatctatggcattgaacatctatagGTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATGCAATGCAGCAGAACCCGGGAAAACAAGCCGTCGGTTCTACTCCCGGAAG

Basic information

species Zea mays
transcript GRMZM2G001272_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G001272_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os12g06630.2 (Oryza sativa), 3'ss of exon 3
tttattccttccccagactccactcatgtgggagcttccggcactgggtctgtccctttttatg-tatca-ctaatatatctatggcattgaacatctatagGTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATGCAATGCAGC---------AGAACCCGGGAAAACAAGCCGTCGGTTCTACTCCCGGAAG
 | ||  |        |   ||    |||          || ||   ||||     |||| ||| ||| | || |||||| ||  |  ||| || | ||  |||| ||||| ||||| |||||||||| ||||||||||||||| || ||||||||  ||||         | |  | ||||||||||||||| ||||||||         
gtaataacccaaaataatggcaactttgtttagagaa--ggtacatcgtctaagtgttttaatggtataatctgatatatttactgtgttggactttta--gGTCAAATCTTCTCGGAACAAAGTTTGTAATATATGATACCCAACCTCCATGCAACACAGCCAATGTTTCACAGTCAGGGAAAACAAGCCGTAGGTTCTAC---------
















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|21330563|gb|BQ485944.1|BQ485944
EST:     AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAG                         GTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG
genomic: AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAGgtactaactc ... acatctatagGTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG
EST: gi|50335303|gb|CO530429.1|CO530429
EST:     AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAG                         GTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG
genomic: AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAGgtactaactc ... acatctatagGTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG
EST: gi|87154671|gb|DY399460.1|DY399460
EST:     AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAG                         GTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG
genomic: AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAGgtactaactc ... acatctatagGTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG
EST: gi|149077539|gb|EE166236.2|EE166236
EST:     AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAA                         GTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCC
genomic: AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAGgtactaactc ... acatctatagGTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCC
EST: gi|21481553|gb|BQ578236.1|BQ578236
EST:     AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAG                         GTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG
genomic: AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAGgtactaactc ... acatctatagGTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG
EST: gi|148955113|gb|EC900627.2|EC900627
EST:     ATTCTNGAAA-TTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAG                         GTCGAATCTCCTCGGCACAAAGTTTGCAATATATGA
genomic: ATTCT-GAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAGgtactaactc ... acatctatagGTCGAATCTCCTCGGCACAAAGTTTGCAATATATGA
EST: gi|33098000|gb|CF057960.1|CF057960
EST:     AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAG                         GTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG
genomic: AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAGgtactaactc ... acatctatagGTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG
EST: gi|93014712|gb|EB640232.1|EB640232
EST:     AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAG                         GTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG
genomic: AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAGgtactaactc ... acatctatagGTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG
EST: gi|149111854|gb|EE191009.2|EE191009
EST:     AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAG                         GTCGAATCTCCTCGGCACAAAGTTTGCCATATATGATACCCAGCCCCCATG
genomic: AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAGgtactaactc ... acatctatagGTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG
EST: gi|7137562|gb|AW499156.1|AW499156
EST:     GGAAAGCTGAG                         GTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG
genomic: GGAAAGCTGAGgtactaactc ... acatctatagGTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG
EST: gi|86468999|gb|DY235369.1|DY235369
EST:     AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAG                         GTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCACCCCCCATG
genomic: AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAGgtactaactc ... acatctatagGTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG
EST: gi|78085094|gb|DV513487.1|DV513487
EST:     AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAG                         GTCGAATCTCCTCGGCACAAAG
genomic: AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAGgtactaactc ... acatctatagGTCGAATCTCCTCGGCACAAAG
EST: gi|26455022|gb|CA826605.1|CA826605
EST:     AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAG                         GTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG
genomic: AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAGgtactaactc ... acatctatagGTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG
EST: gi|50333305|gb|CO528431.1|CO528431
EST:     AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAG                         GTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG
genomic: AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAGgtactaactc ... acatctatagGTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG
EST: gi|21891490|gb|BQ744703.1|BQ744703
EST:     AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAG                         GTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG
genomic: AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAGgtactaactc ... acatctatagGTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG
EST: gi|148940279|gb|EC885058.2|EC885058
EST:     AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAG                         GTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG
genomic: AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAGgtactaactc ... acatctatagGTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG
EST: gi|149014539|gb|EE044173.2|EE044173
EST:     AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAG                         GTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG
genomic: AATTCTGAAAATTTATCTAGGTCAAGCAAAATGTACATTGGAAAGCTGAGgtactaactc ... acatctatagGTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggtctgtccctttttatgtatcactaatatatctatggcattgaacatctatagGTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATGCAATGCAGCAGAACCCGGGAAAACAAGCCGTCGGTTCTACTCCCGGAAG
                      cactaat  putative branch site (score: 2)
           tttttatgtatcacta  TA-rich tract