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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttctttatcttcattatttgaaattttgatagttcttcgccagctagtgtagcagttcattcaagatcaaaatcttgatcctcttggtaattgtggcacttatttcccccctcgttcaatgtgaatttcagTTCAATACAAGTTGGCATGACAGCAATCAAGTACATCCCTCAG

Basic information

species Zea mays
transcript GRMZM2G015869_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G015869_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os12g18110.1 (Oryza sativa), 3'ss of exon 4
gtaagttttctttatcttcattatttgaaat-tttgatagttcttcgccagctagtgtagcagttcattcaagatcaaaatcttgatcctcttggtaattgtggcacttatttcccccctcgttcaatgtgaatttcagTTCAATACAAGTTGGCATGACAGCAATCAAGTACATCCCTCAG
||||||| | | | ||    || |   |||| | |      ||     ||| ||   ||   |||  ||   ||   | || ||| |||  || |   | |||| ||| |||||   |     | |||||| | || ||||||||||| ||||| |||||||||||||| ||||| ||||||
gtaagttctttct-tcactgttctacaaaatatctctctaatcaagttcagttatgctaattgtttgttattgac--atatattgctccattttgctctagtggaactgatttctttctc---ttaatgtgtactttagTTCAATACAGGTTGGGATGACAGCAATCAAATACATTCCTCAG
















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|37420119|gb|CF647747.1|CF647747
EST:     ATTATTGCTTGGCCAAAAAGTGACTGGCTTTGGCTTATTGATGTATTCAA                         TTCAATACAAGTTGGCATGACAGCAATCAAGTACATCCCTCAGGC
genomic: ATTATTGCTTGGCCAAAAAGTGACTGGCTTTGGCTTATTGATGTATTCAAgtaagttttc ... tgaatttcagTTCAATACAAGTTGGCATGACAGCAATCAAGTACATCCCTCAGGC
EST: gi|78084914|gb|DV513307.1|DV513307
EST:     ATTATTGCTTGGCCAAAAAGTGACTGGCTTTGGCTTATTGATGTATTCAA                         TTCAATACAAGTTGGCATGACAGCAATCAAGTACATCCCTCAG
genomic: ATTATTGCTTGGCCAAAAAGTGACTGGCTTTGGCTTATTGATGTATTCAAgtaagttttc ... tgaatttcagTTCAATACAAGTTGGCATGACAGCAATCAAGTACATCCCTCAG
EST: gi|50334359|gb|CO529485.1|CO529485
EST:     ATTATTGCTTGGCCAAAAAGTGACTGGCTTTGGCTTATTGATGTATTCAA                         TTCAATACAAGTTGGCATGACAGCAATCAAGTAC
genomic: ATTATTGCTTGGCCAAAAAGTGACTGGCTTTGGCTTATTGATGTATTCAAgtaagttttc ... tgaatttcagTTCAATACAAGTTGGCATGACAGCAATCAAGTAC
EST: gi|32918962|gb|CF023774.1|CF023774
EST:     ATTATTGCTTGGCCAAAAAGTGACTGGCTTTGGCTTATTGATGTATTCAA                         TTCAATACAAGTTGGAATGACAGCAATCAAGTACATCCCTCAGGC
genomic: ATTATTGCTTGGCCAAAAAGTGACTGGCTTTGGCTTATTGATGTATTCAAgtaagttttc ... tgaatttcagTTCAATACAAGTTGGCATGACAGCAATCAAGTACATCCCTCAGGC
EST: gi|78084875|gb|DV513268.1|DV513268
EST:     ATTATTGCTTGGCCAAAAAGTGACTGGCTTTGGCTTATTGATGTATTCAA                         TTCAATACAAGTTGGCATGACAGCAATCAAGTACATCCCTCAG
genomic: ATTATTGCTTGGCCAAAAAGTGACTGGCTTTGGCTTATTGATGTATTCAAgtaagttttc ... tgaatttcagTTCAATACAAGTTGGCATGACAGCAATCAAGTACATCCCTCAG
EST: gi|71772025|gb|DR969962.1|DR969962
EST:     ATTATTGCTTGGCCAAAAAGTGACTGGCTTTGGCTTATTGATGTATTCAA                         TTCAATACAAGTTGGCATGACAGCAATCAAGTACATCCCTCAGGC
genomic: ATTATTGCTTGGCCAAAAAGTGACTGGCTTTGGCTTATTGATGTATTCAAgtaagttttc ... tgaatttcagTTCAATACAAGTTGGCATGACAGCAATCAAGTACATCCCTCAGGC
EST: gi|9732652|gb|BE511404.1|BE511404
EST:     ATTATTGCTTGGCCAAAAAGTGACTGGCTTTGGCTTATTGATGTATTCAA                         TTCAATACAAGTTGGCATGACAGCAATCAAGTACATCCCTCAGGC
genomic: ATTATTGCTTGGCCAAAAAGTGACTGGCTTTGGCTTATTGATGTATTCAAgtaagttttc ... tgaatttcagTTCAATACAAGTTGGCATGACAGCAATCAAGTACATCCCTCAGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatcctcttggtaattgtggcacttatttcccccctcgttcaatgtgaatttcagTTCAATACAAGTTGGCATGACAGCAATCAAGTACATCCCTCAG
 tcttgat  putative branch site (score: 4)
                     acttattt  TA-rich tract