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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcaggcgtcggtttgaattctcgggccggtgcttcgatgactgtttcctcacgcttcgtttgtcggtgtcctcgcagGACCGGGGACTCGAGGGGTTTTGCGTTCGTGCGGTACAAGTACGCCGACGAGGCGCAGAAGGCTATAGATCGGCTCGATG

Basic information

species Zea mays
transcript GRMZM2G110143_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G110143_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os08g37960.2 (Oryza sativa), 3'ss of exon 2
gtcaggcgtcggtttgaattctcgggccggt-gcttcgatgactgtttcctcacgcttcgtttgtcgg------tgtcctcgc-----agGACCGGGGACTCGAGGGGTTTTGCGTTCGTGCGGTACAAGTACGCCGACGAGGCGCAGAAGGCTATAGATCGGCTCGATG
|| ||| | || |||   |    |||  | | | |  | |   |||||  ||  | |   ||||          |||   |||     ||||| |||||||||||||| || ||||||||||| ||||||||||| || |||||||||||||||||||||||||| ||||
gtgaggagccgctttttttgggtggggtgtttgttctgctcgttgttttgtctggatgtttttgctcaaaattttgttgccgctattaagGACTGGGGACTCGAGGGGATTCGCGTTCGTGCGCTACAAGTACGCTGAAGAGGCGCAGAAGGCTATAGATCGGCTTGATG
















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|211438564|gb|FL360647.1|FL360647
EST:     CGAGCGCTGCGGGCAAGGGTCGTCGACGTCTTCATCCCGAGGGACCGCAG                         GACCGGGNACTCGAGGGGGTTTTGCGTTCGTGCGG
genomic: CGAGCGCTGCGG-CAAGG-TCGTCGACGTCTTCATCCCGAGGGACCGCAGgtcaggcgtc ... gtcctcgcagGACCGGGGACTCGAGGGG-TTTTGCGTTCGTGCGG
EST: gi|211440859|gb|FL253848.1|FL253848
EST:     TTCGAGCGCTGCGGCAAGGTCGTCGACGTCTTCATCCCGAGGGACCGCAG                         GACCGGGGACTCGAGGGGTTTTGCGTTCGTGCGGTACAAGTACGCCGACGA
genomic: TTCGAGCGCTGCGGCAAGGTCGTCGACGTCTTCATCCCGAGGGACCGCAGgtcaggcgtc ... gtcctcgcagGACCGGGGACTCGAGGGGTTTTGCGTTCGTGCGGTACAAGTACGCCGACGA
EST: gi|211008119|gb|FL365557.1|FL365557
EST:     TTCGAGCGCTGCGGCAAGGTCGTCGACGTCTTCATCCCGAGGGACCGCAG                         GACCGGGGACTCGAGGGGTTTTGCGTTCGTGCGGTACAAGTACGCCGACGA
genomic: TTCGAGCGCTGCGGCAAGGTCGTCGACGTCTTCATCCCGAGGGACCGCAGgtcaggcgtc ... gtcctcgcagGACCGGGGACTCGAGGGGTTTTGCGTTCGTGCGGTACAAGTACGCCGACGA
EST: gi|211235451|gb|FL353173.1|FL353173
EST:     TTCGAGCGCTGCGGCAAGGTCGTCGACGTCTTCATCCCGAGGGACCGCAG                         GACCGGGGACTCGAGGGGTTTTGCGTTCGTGCGGTACAAGTACGCCGACGA
genomic: TTCGAGCGCTGCGGCAAGGTCGTCGACGTCTTCATCCCGAGGGACCGCAGgtcaggcgtc ... gtcctcgcagGACCGGGGACTCGAGGGGTTTTGCGTTCGTGCGGTACAAGTACGCCGACGA
EST: gi|211161811|gb|FL316356.1|FL316356
EST:     TTCGAGCGCTGCGGCAAGGTCGTCGACGTCTTCATCCCGAGGGACCGCAG                         GACCGGGGACTCGAGGGGTTTTGCGTTCGTGCGGTACAAGTAC
genomic: TTCGAGCGCTGCGGCAAGGTCGTCGACGTCTTCATCCCGAGGGACCGCAGgtcaggcgtc ... gtcctcgcagGACCGGGGACTCGAGGGGTTTTGCGTTCGTGCGGTACAAGTAC
EST: gi|211470092|gb|FL331953.1|FL331953
EST:     TTCGAGCGCTGCGGCAAGGTCGTCGACGTCTTCATCCCGAGGGACCGCAG                         -ACCGGGGACTCGAGGGGTTTTGCGTTCGTGCGGTACAAGTACGCCGACGA
genomic: TTCGAGCGCTGCGGCAAGGTCGTCGACGTCTTCATCCCGAGGGACCGCAGgtcaggcgtc ... gtcctcgcagGACCGGGGACTCGAGGGGTTTTGCGTTCGTGCGGTACAAGTACGCCGACGA
EST: gi|78105340|gb|DV523758.1|DV523758
EST:     TTCGAGCGCTGCGGCAAGGTCGTCGACGTCTTCATCCCGAGGGACCGCAG                         GACCGGGGACTCGAGGGGTTTTGCGTTCGTGCGGTACAAGTACGCCGACGA
genomic: TTCGAGCGCTGCGGCAAGGTCGTCGACGTCTTCATCCCGAGGGACCGCAGgtcaggcgtc ... gtcctcgcagGACCGGGGACTCGAGGGGTTTTGCGTTCGTGCGGTACAAGTACGCCGACGA
EST: gi|211440857|gb|FL253846.1|FL253846
EST:     TTCGAGCGCTGCGGCAAGGTCGTCGACGTCTTCATCCCGAGGGACCGCAG                         GACCGGGGACTCGAGGGGTTTTGCGTTCGTGCGGTACAAGTACGCCGACGA
genomic: TTCGAGCGCTGCGGCAAGGTCGTCGACGTCTTCATCCCGAGGGACCGCAGgtcaggcgtc ... gtcctcgcagGACCGGGGACTCGAGGGGTTTTGCGTTCGTGCGGTACAAGTACGCCGACGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggccggtgcttcgatgactgtttcctcacgcttcgtttgtcggtgtcctcgcagGACCGGGGACTCGAGGGGTTTTGCGTTCGTGCGGTACAAGTACGCCGACGAGGCGCAGAAGGCTATAGATCGGCTCGATG
                       tcctcac  putative branch site (score: 2)
                                            tgtcctc  putative PPT