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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcaaaatttaatcttccttcctttcagtttccccttatatttgaaagtatatattattatgattctctctttatatatgcttcaattataaaaaaacttcatcctggtgttcataaatttgcaatggattttcctgcagGACCAATTTGACACAATAGACTTATCTGACAATGAGATTGTTAAACTTGAAAATGTACCATATCTTAACCGGTTGGGCACAATGCTCATTAACAACAACA

Basic information

species Glycine max
transcript GLYMA20G18440.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G18440.2 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os02g13990.3 (Oryza sativa), 3'ss of exon 2
gtgcaaaatttaatcttccttcctttcagtttccccttatatttgaaagtatatattattatgattctctctttatatatgcttcaattataaaaaaacttcatcctggtgttcataaatttgcaatggattttcctgcagGACCAATTTGACACAATAGACTTATCTGACAATGAGATTGTTAAACTTGAAAATGTACCATATCTTAACCGGTTGGGCACAATGCTCATTAACAACAACA
                           | |   |  |   |||| |     ||| | |    | || | | ||  ||| | |||   |    |  |   || |  ||  | ||  | | |||||       | ||    ||||||||||||||||||| ||||| || |||||||||||||| || ||||| ||  | || ||  | || ||  | |||||  || |  ||||||| ||||
---------------------------aatactcattctcatttcag----tatttgacccagcttttgttttattatcttctt---tctccagcatgtttaacacttctttttgttactttgc-------tctcaaatagGACCAATTTGACACAATTGACTTGTCAGACAATGAGATTGTCAAGCTTGAGAACTTCCCGTACTTGAATCGTCTTGGCACTCTGTTAGTTAACAATAACA

upper sequence: GLYMA20G18440.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G021742_T01 (Zea mays), 3'ss of exon 2
gtgcaaaatttaatcttccttcctttcagtttccccttatatttgaaagtatatattattatgattctctctttatatatgcttcaattataaaaaaacttcatcctggtgttcataa----atttgcaatggattttcct---gcagGACCAATTTGACACAATAGACTTATCTGACAATGAGATTGTTAAACTTGAAAATGTACCATATCTTAACCGGTTGGGCACAATGCTCATTAACAACAACA
                                                | |||    ||| | | |||   ||   ||    || | || |       | |  ||  |   ||| |||    || |  | |   | |  ||    |||||||| ||||||||||| ||||| || || ||||||||||| || ||||||||  | |||||  | || ||  | |||||  | ||  |||| || ||||
------------------------------------------------gaatagtaaattttaaatcttatttagaatggtatttagttgtttgggttccttctctagcctttcttaacaccatctatattcactctctctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAAAACTTCCCATACTTGAATCGTCTTGGCACTCTACTAGTTAATAATAACA

upper sequence: GLYMA20G18440.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv01s0150g00590.t01 (Vitis vinifera), 3'ss of exon 2
gtgcaaaatttaatcttccttcctttcagtttccccttatatttgaaagtatatattattatgattctctctttatatatgcttcaattataaaaaaacttcatcctggtgtt-cataaatttgcaatggattttcctgcagGACCAATTTGACACAATAGACTTATCTGACAATGAGATTGTTAAACTTGAAAATGTACCATATCTTAACCGGTTGGGCACAATGCTCATTAACAACAACA
                                          || ||| | | | | | |    ||   | |||  |  | |||   || |  |      |  |  || | || ||| | |||   || |  |     ||||||||||||||| || || || || ||||||||||||||||| || || |||||  | || |||||||| |||||||| ||  |||| || |||||||| |
-----------------------------------------ctttaaaat-tgtttcagtggatttacttgtttgcagcttcttgtgttttgcactttaatgttgttgcttttgcatgatttttatatcggctcattggcagGACCAATTTGATACCATTGATTTGTCTGACAATGAGATTGTCAAGCTCGAAAACTTGCCTTATCTTAATCGGTTGGGTACTTTGCTTATCAACAACAATA

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|192294286|gb|FG986375.1|FG986375
EST:     ATCTCAGAGGCAACAAGATAGCTGTAATTGAAAACTTGGGTGCTACTGAG                         GACCAATTTGACACAATAGACTTATCTGACAATGAGATTGTTAAACTTGAA
genomic: ATCTCAGAGGCAACAAGATAGCTGTAATTGAAAACTTGGGTGCTACTGAGgtgcaaaatt ... tttcctgcagGACCAATTTGACACAATAGACTTATCTGACAATGAGATTGTTAAACTTGAA
EST: gi|192326367|gb|FK017669.1|FK017669
EST:     ATCTCAGAGGCAACAAGATAGCTGTAATTGAAAACTTGGGTGCTACTGAG                         GACCAATTTGACACAATAGACTTATCTGACAATGAGATTGTTAAACTTGAA
genomic: ATCTCAGAGGCAACAAGATAGCTGTAATTGAAAACTTGGGTGCTACTGAGgtgcaaaatt ... tttcctgcagGACCAATTTGACACAATAGACTTATCTGACAATGAGATTGTTAAACTTGAA
EST: gi|19054300|gb|BM732967.1|BM732967
EST:     ATCTCAGAGGCAACAAGATAGCTGTAATTGAAAACTTGGGTGCTACTGAG                         GACCAATTTGACACAATAGACTTATCTGACAATGAGATTGTTAAACTTGAA
genomic: ATCTCAGAGGCAACAAGATAGCTGTAATTGAAAACTTGGGTGCTACTGAGgtgcaaaatt ... tttcctgcagGACCAATTTGACACAATAGACTTATCTGACAATGAGATTGTTAAACTTGAA
EST: gi|7588075|gb|AW703878.1|AW703878
EST:     ATCTCAGAGGCAACAAGATAGCTGTAATTGAAAACTTGGGTGCTACTGAG                         GACCAATTTGACACAATAGACTTATCTGACAATGAGATTGTTAAACTTGAA
genomic: ATCTCAGAGGCAACAAGATAGCTGTAATTGAAAACTTGGGTGCTACTGAGgtgcaaaatt ... tttcctgcagGACCAATTTGACACAATAGACTTATCTGACAATGAGATTGTTAAACTTGAA
EST: gi|192305354|gb|FG994036.1|FG994036
EST:     ATCTCAGAGGCAACAAGATAGCTGTAATTGAAAACTTGGGTGCTACTGAG                         GACCAATTTGACACAATAGACTTATCTGACAATGAGATTGTTAAACTTGAA
genomic: ATCTCAGAGGCAACAAGATAGCTGTAATTGAAAACTTGGGTGCTACTGAGgtgcaaaatt ... tttcctgcagGACCAATTTGACACAATAGACTTATCTGACAATGAGATTGTTAAACTTGAA
EST: gi|23728179|gb|BU762135.1|BU762135
EST:     ATCTCAGAGGCAACAAGATAGCTGTAATTGAAAACTTGGGTGCTACTGAG                         GACCAATTTGACACAATAGACTTATCTGACAATGAGATTGTTAAACTTGAA
genomic: ATCTCAGAGGCAACAAGATAGCTGTAATTGAAAACTTGGGTGCTACTGAGgtgcaaaatt ... tttcctgcagGACCAATTTGACACAATAGACTTATCTGACAATGAGATTGTTAAACTTGAA
EST: gi|298192581|gb|HO033015.1|HO033015
EST:     ATCTCAGAGGCAACAAGATAGCTGTAATTGAAAACTTGGGTGCTACTGAG                         GACCAATTTGACACAATAGACTTATCTGACAATGAGATTGTTAAACTTGAA
genomic: ATCTCAGAGGCAACAAGATAGCTGTAATTGAAAACTTGGGTGCTACTGAGgtgcaaaatt ... tttcctgcagGACCAATTTGACACAATAGACTTATCTGACAATGAGATTGTTAAACTTGAA
EST: gi|151394202|gb|EV264073.1|EV264073
EST:     ATCTCAGAGGCAACAAGATAGCTGTAATTGAAAACTTGGGTGCTACTGAG                         GACCAATTTGACACAATAGACTTATCTGACAATGAGATTGTTAAACTTGAA
genomic: ATCTCAGAGGCAACAAGATAGCTGTAATTGAAAACTTGGGTGCTACTGAGgtgcaaaatt ... tttcctgcagGACCAATTTGACACAATAGACTTATCTGACAATGAGATTGTTAAACTTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attataaaaaaacttcatcctggtgttcataaatttgcaatggattttcctgcagGACCAATTTGACACAATAGACTTATCTGACAATGAGATTGTTAAACTTGAAAATGTACCATATCTTAACCGGTTGGGCACAATGCTCATTAACAACAACA
                                            ttttcctgc  CT-rich tract
                         ttcataaattt  TA-rich tract