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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtagtgatcctgcttatcctattctttgcgctgtgtttttcatggttcaagatatgatttctgtgaatcgtattgttgatatgttgctaacgattttgcagGAGACAATGTCCAATGAACATGCCATGCGTTTTCCCTTTGTTGGGAGTGCAATGTTATTGTCACTCTTCTTACTCTTCAAGTTTCTATCCAAGGACTTGG

Basic information

species Glycine max
transcript GLYMA04G08510.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G08510.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os05g36070.2 (Oryza sativa), 3'ss of exon 3
gtaagtagtgatcctg--cttatcctattctt--------------tgcgctgtgtttttcat--ggttcaagatatgatttctgtgaatcgtattg--ttgatatgttgctaacgattttgcagGAGACAATGTCCAATGAACATGCCATGCGTTTTCCCTTTGTTGGGAGTGCAATGTTATTGTCACTCTTCTTACTCTTCAAGTTTCTATCCAAGGACTTGG
||||| | |   | ||  ||| |  ||| | |              || | |  ||| |||||     |    | ||| |  || ||  ||  | |   || || | |  ||     || |  |||||||||||||||| |||||||| ||||| ||||| || || || ||||| ||| | ||||| |||||| | || ||||||||||| || || || ||||
gtaagcaatatgcttgaacttgttttatccatctgctgggcactaatgtgataggttattcatccaacttcctacatg-tacctctggctctgaataacttaatttttgcctttttcttatatagGAGACAATGTCCAAAGAACATGCTATGCGGTTTCCTTTGGTGGGAAGTGCTATGCTTTTGTCCCTCTTCCTTCTATTCAAGTTTCTCTCAAAAGATTTGG

upper sequence: GLYMA04G08510.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G150251_T01 (Zea mays), 3'ss of exon 3
gtaagtagtgatcctgcttatcctattctttgcgctgtgtttttcatggttcaagatatgatttctgtgaatcgtattgttgatatgttgctaacg-attttgcagGAGACAATGTCCAATGAACATGCCATGCGTTTTCCCTTTGTTGGGAGTGCAATGTTATTGTCACTCTTCTTACTCTTCAAGTTTCTATCCAAGGACTTGG
||||||| |         | |   | | | |  ||| || | ||| ||     |  | | | |  |||||  |  | || |    |  ||| |  | ||| |||||||||| |||||||| || ||||| ||||| || ||||| ||||| ||||| ||| | || ||||| ||  | || ||||||||||| || || |||||||
gtaagtaata--------tgtgtcaatgtatctgct-tgctattcttg---tgacttgtaactcatgtga--ccaactgatttgtttctgcaattgtattatgcagGAGACCATGTCCAAGGAGCATGCGATGCGGTTCCCCTTAGTTGGAAGTGCTATGCTTTTATCACTGTTTCTTCTATTCAAGTTTCTCTCAAAAGACTTGG

upper sequence: GLYMA04G08510.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G03120.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaagtagtgatcctgcttatcctattctttgcgctgtgtttttcatggttcaagatatgatttctgtgaatcgtattgttgatatgttgctaacgattttgcagGAGACAATGTCCAATGAACATGCCATGCGTTTTCCCTTTGTTGGGAGTGCAATGTTATTGTCACTCTTCTTACTCTTCAAGTTTCTATCCAAGGACTTGG
|||||       |    | |   | || |||    |  ||    ||   ||| | ||  ||| |     ||| || |  ||| | ||         ||  || ||||||| ||||| || ||||||||||||||||| || || ||||||||||| ||| |  | ||||| |||||| | ||||||||||| || ||||||||||
gtaagacaaagacgcaatcagattgtttttttttattagtgaaacaattttccaaattcgatct----aaattgtttctttggtttga-------aatggtgtagGAGACGATGTCAAAAGAACATGCCATGCGTTTCCCATTGGTTGGGAGTGCTATGCTTCTCTCACTTTTCTTATTGTTCAAGTTTCTCTCAAAGGACTTGG

upper sequence: GLYMA04G08510.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv06s0009g03520.t01 (Vitis vinifera), 3'ss of exon 3
---------gtaagtagtgatcctgcttatcctattctttgcgctgtgtttttcatggttcaagatatgatttctgtgaatcgtattgttgatatgttgctaacgattttgcagGAGACAATGTCCAATGAACATGCCATGCGTTTTCCCTTTGTTGGGAGTGCAATGTTATTGTCACTCTTCTTACTCTTCAAGTTTCTATCCAAGGACTTGG
          | ||    | |||||| | || |||| | |  ||  | ||||||||| |||  || |     | |  ||||       ||||||||||     |  |  |||||||||||||||| ||||||||||| ||||| ||||| |||||||||||||||||| | || ||||| ||| | ||||||||||||||||| || |||||||
gtaagaacaattagccaagttcctgcctttcttatt-tctatgccatatttttcatgattctggaaa--gcctgtccgaatt------ttgatatgtt-----cattcatgcagGAGACAATGTCTAATGAACATGCTATGCGCTTTCCTTTTGTTGGGAGTGCAATGCTGTTATCACTATTCCTTCTCTTCAAGTTTCTATCAAAAGACTTGG

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|207760670|gb|GD733671.1|GD733671
EST:     TCACTGTGTTTGTGGGCTGTTACCGCTCCGTTAAACCAACCCCACCAACT                         GAGACAATGTCCAATGAACATGCCATGCGTTTTCCCTTTTGTTGGGAGTGC
genomic: TCACTGTGTTTGTGGGCTGTTACCGCTCCGTTAAACCAACCCCACCAACTgtaagtagtg ... gattttgcagGAGACAATGTCCAATGAACATGCCATGCGTTTTCCCTTT-GTTGGGAGTGC
EST: gi|120494247|gb|EH222414.1|EH222414
EST:     TCACTGTGTTTGTGGGCTGTTACCGCTCCGTTAAACCAACCCCACCAACT                         GAGACAATGTCCAATGAACATGCCATGCGTTTTCCCTTTGTTGGGAGTGCA
genomic: TCACTGTGTTTGTGGGCTGTTACCGCTCCGTTAAACCAACCCCACCAACTgtaagtagtg ... gattttgcagGAGACAATGTCCAATGAACATGCCATGCGTTTTCCCTTTGTTGGGAGTGCA
EST: gi|193484547|gb|FK451169.1|FK451169
EST:     TCACTGTGTTTGTGGGCTGTTACCGCTCCGTTAAACCAACCCCACCAACT                         GAGACAATGTCCAATGAACATGCCATGCGTTTTCCCTTTGTTGGGAGTGCA
genomic: TCACTGTGTTTGTGGGCTGTTACCGCTCCGTTAAACCAACCCCACCAACTgtaagtagtg ... gattttgcagGAGACAATGTCCAATGAACATGCCATGCGTTTTCCCTTTGTTGGGAGTGCA
EST: gi|6481874|gb|AW201145.1|AW201145
EST:     CCAACCCCACCAACT                         GAGACAATGTCCAATGAACATGCCATGCGTTTTCCCTTTGTTGGGAGTGCA
genomic: CCAACCCCACCAACTgtaagtagtg ... gattttgcagGAGACAATGTCCAATGAACATGCCATGCGTTTTCCCTTTGTTGGGAGTGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaagatatgatttctgtgaatcgtattgttgatatgttgctaacgattttgcagGAGACAATGTCCAATGAACATGCCATGCGTTTTCCCTTTGTTGGGAGTGCAATGTTATTGTCACTCTTCTTACTCTTCAAGTTTCTATCCAAGGACTTGG
                                      tgctaac  putative branch site (score: 1)
     atatgattt  TA-rich tract