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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgtcatttctgacaatcccgttaattgtagttttccaaactttcacgattaattttttattagcatttctaatagacaaacttttactttacttctaggagtacttttatcatacatttattagttccttgcatcaacacttaacttatttgtacagGGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGTGCAAATTATATTCAG

Basic information

species Zea mays
transcript GRMZM2G174696_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G174696_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g20750.1 (Oryza sativa), 3'ss of exon 5
gttgtcatttctgacaatcccgttaattgtagttttccaaactttcacgattaattttttattagcatttctaatagacaaacttttactttacttctaggagtacttttatcatacatttattagttccttgcatcaacacttaacttatttgtacagGGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGTGCAAATTATATTCAG
||    ||||| ||| |  |   |        ||  ||||    | |   | |||  | | | || ||| || ||    |||||  |  || | ||    || | |||  |||  | || | |      |||      ||| || ||  || |||  |||| |  ||||| ||||| ||||| |||||||| || ||||| |||||||| |||||||||||||||
gtcagtatttcagactacacttct--------ttgaccaataagtgaatttcaataatctgtgagaattacttattagaaaactactttttaatttt---gattgcttccatctgatatctgtagtcctctt------acaattcacaaatctgtgtagGGGACAGACTACCGAGCTCAATTTCAAATTGGAAATAATGCGTTCTATGGGGCAAATTATATTCAG
















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|31353843|gb|CD438200.1|CD438200
EST:     TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAG                         GGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
genomic: TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcattt ... atttgtacagGGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
EST: gi|51593036|gb|CV072182.1|CV072182
EST:     TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAG                         GGAAGTGACTATCGAGCACAATTCCAAATTGGGGAACAATGCATTCTATGG
genomic: TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcattt ... atttgtacagGGAAGTGACTATCGAGCACAATTCCAAATTGGG-AACAATGCATTCTATGG
EST: gi|148944949|gb|EC890114.2|EC890114
EST:     TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAG                         GGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
genomic: TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcattt ... atttgtacagGGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
EST: gi|71428447|gb|DR809497.1|DR809497
EST:     TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAG                         GGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
genomic: TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcattt ... atttgtacagGGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
EST: gi|76294141|gb|DV033709.1|DV033709
EST:     TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAG                         GGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
genomic: TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcattt ... atttgtacagGGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
EST: gi|148937183|gb|EC881364.2|EC881364
EST:     TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACGAG                         GGAAGTGACTATCGAGCACAATTCCAAATTGAGAACAATGCATTCTATGGT
genomic: TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcattt ... atttgtacagGGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
EST: gi|5268993|gb|AI770957.1|AI770957
EST:     TTACCCAAGAAGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAG                         GGAAGTGACTATCGAGCACAATT
genomic: TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcattt ... atttgtacagGGAAGTGACTATCGAGCACAATT
EST: gi|6095402|gb|AW120069.1|AW120069
EST:     TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAG                         GGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
genomic: TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcattt ... atttgtacagGGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
EST: gi|6095403|gb|AW120070.1|AW120070
EST:     TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAG                         GGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
genomic: TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcattt ... atttgtacagGGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
EST: gi|149090165|gb|EE179465.2|EE179465
EST:     TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAG                         GGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATG
genomic: TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcattt ... atttgtacagGGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATG
EST: gi|89762284|gb|DY689955.1|DY689955
EST:     TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAG                         GGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
genomic: TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcattt ... atttgtacagGGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
EST: gi|6095404|gb|AW120071.1|AW120071
EST:     TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAG                         GGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
genomic: TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcattt ... atttgtacagGGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttttatcatacatttattagttccttgcatcaacacttaacttatttgtacagGGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGTGCAAATTATATTCAG
                                    acttaac  putative branch site (score: 3)
                                          cttattt  CT-rich tract
     tatcatacatttatta  TA-rich tract