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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caacctacgaaaagaatgaggatggggaatctaaatctgtttcatgtctataccagcaggccagaaaccagtgtactaatgtgtttgaacttcattacagGCCTTCAGTAAAAATACCAGTCTCTGTTATGATGCCGGTGGCTCATGTTGTAGAATGGACTTACCAGAAATTTGCCAAGTATGGAATGAAAGTTCCTCAG

Basic information

species Zea mays
transcript GRMZM2G149224_T02
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G149224_T03 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os03g29170.2 (Oryza sativa), 3'ss of exon 6
caacctacgaaaagaa--tgaggatggggaatctaa-atctgtttcatgtctataccagcaggccagaaaccagtgtactaatgtgtttgaacttcattacagGCCTTCAGTAAAAATACCAGTCTCTGTTATGATGCCGGTGGCTCATGTTGTAGAATGGACTTACCAGAAATTTGCCAAGTATGGAATGAAAGTTCCTCAG
   ||| |   | ||   |||||||||  | |  |  ||   | | ||   ||||  ||     ||   |||| ||||||||||  || ||||||  |  |||||||||| ||||||||||||| |||||||||||||| ||||||||| | ||||||||||||||  |||  || ||    |||||||||||| ||||||||
---cctgcaggatgagtttgaggatggacagtgaaggatacatcttatacatatatgagtttatcaattaccattgtactaatgcattagaactttgtggcagGCCTTCAATAAAAATACCAGTTTCTGTTATGATGCCAGTGGCTCATATGGTAGAATGGACTTATAAGACGTTCGCTCGCTATGGAATGAAAATTCCTCAG
















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|87151705|gb|DY396494.1|DY396494
EST:     AAATTCTGGGAGTTCATGTCATTGATTTTAGAAGGTCTTGGATATGAAAG                         GCCTTCAGTAAAAATACCAGTCTCTGTTATGATGCCAGTGGCTCATGTTGT
genomic: AAATTCTGGGAGTTCATGTCATTGATTTTAGAAGGTCTTGGATATGAAAGgtattcatgt ... ttcattacagGCCTTCAGTAAAAATACCAGTCTCTGTTATGATGCCGGTGGCTCATGTTGT
EST: gi|32863056|gb|CF002738.1|CF002738
EST:     AAATTCTGGGAGTTCATGTCATTGATTTTAGAAGGTCTTGGATATGAAAG                         GCCTTCAGTAAAAATACCAGTCTCTGTTATGATGCCAGTGGCTCATGTTGT
genomic: AAATTCTGGGAGTTCATGTCATTGATTTTAGAAGGTCTTGGATATGAAAGgtattcatgt ... ttcattacagGCCTTCAGTAAAAATACCAGTCTCTGTTATGATGCCGGTGGCTCATGTTGT
EST: gi|18450805|gb|BM429083.1|BM429083
EST:     ATTCTGGGAGTTCATGTCATTGAATTTAAGAAAGGTCTTGGATATGAAAG                         GCCTTCAGTAAAAATACCAGTCTCTGTTATGATGCCAGTGGCTCATGTTGT
genomic: ATTCTGGGAGTTCATGTCATTG-ATTTTAG-AAGGTCTTGGATATGAAAGgtattcatgt ... ttcattacagGCCTTCAGTAAAAATACCAGTCTCTGTTATGATGCCGGTGGCTCATGTTGT
EST: gi|149072461|gb|EE160738.2|EE160738
EST:     AATTCTGGGAGTTCATGTCATTGATTTTAGAAGGTCTTGGATATGAAAAG                         GC-TTCAGTAAAAATACCCGTCTCCTGT-ATGATGC
genomic: AATTCTGGGAGTTCATGTCATTGATTTTAGAAGGTCTTGGATATGAAA-Ggtattcatgt ... ttcattacagGCCTTCAGTAAAAATACCAGTCTC-TGTTATGATGC
EST: gi|22489855|gb|BU049778.1|BU049778
EST:     AAATTCTGGGAGTTCATGTCATTGATTTTAGAAGGTCTTGGATATGAAAG                         GCCTTCAGTAAAAATACCAGTCTCTGTTATGATGCCAGTGGCTCATGTTGT
genomic: AAATTCTGGGAGTTCATGTCATTGATTTTAGAAGGTCTTGGATATGAAAGgtattcatgt ... ttcattacagGCCTTCAGTAAAAATACCAGTCTCTGTTATGATGCCGGTGGCTCATGTTGT
EST: gi|31364547|gb|CD448902.1|CD448902
EST:     AAATTCTGGGAGTTCATGTCATTGATTTTAGAAGGTCTTGGATATGAAAG                         GCCTTCAGTAAAAATACCAGTCTCTGTTATGATGCCGGCGGCTCATGTTGT
genomic: AAATTCTGGGAGTTCATGTCATTGATTTTAGAAGGTCTTGGATATGAAAGgtattcatgt ... ttcattacagGCCTTCAGTAAAAATACCAGTCTCTGTTATGATGCCGGTGGCTCATGTTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtctataccagcaggccagaaaccagtgtactaatgtgtttgaacttcattacagGCCTTCAGTAAAAATACCAGTCTCTGTTATGATGCCGGTGGCTCATGTTGTAGAATGGACTTACCAGAAATTTGCCAAGTATGGAATGAAAGTTCCTCAG
                            tactaat  putative branch site (score: 1)
                                            cttcatt  putative PPT
                            tactaat  TA-rich tract