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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgaatctttttccctgaaactatctccttcaattgagcatagctctctttctcagttcatctcgtcacctcttaatgtttgtttgcttgcagGATTATGTTGCAACCAGGTGGTATAGGGCTCCTGAGTTGTGTGGATCCTTTTTTTCCAAG

Basic information

species Glycine max
transcript GLYMA13G28120.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G28120.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G089484_T01 (Zea mays), 3'ss of exon 3
gtatgaatctttttccctgaaactatctccttcaattga-gcatagctctctttctcagttcatctcgtcacctcttaatgtttgtttgcttgcagGATTATGTTGCAACCAGGTGGTATAGGGCTCCTGAGTTGTGTGGATCCTTTTTTTCCAAG
||||||   |||||  |    |||||    |||| |||  ||   ||| |||||||       ||| ||    ||||| |  ||||||      |||||||||||||||| ||||||||  | || || |||||||||||||| || || ||||||
gtatgacattttttgacc---actatgctattcagttgttgctaggctatctttctagtggtgtctagtt---tcttact-cttgttt-----tagGATTATGTTGCAACTAGGTGGTACCGAGCACCAGAGTTGTGTGGATCTTTCTTCTCCAAG

upper sequence: GLYMA13G28120.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv05s0020g02530.t01 (Vitis vinifera), 3'ss of exon 3
-------------------------------------------gtatgaatct--ttttccctgaaact----atctccttcaattgagcatagctctctttctcagttcatctcg-----tcacctcttaatgtttgtttgcttgcagGATTATGTTGCAACCAGGTGGTATAGGGCTCCTGAGTTGTGTGGATCCTTTTTTTCCAAG
                                           | |    |||  |||||  ||  |||     |    |     | |  |  | | | |  ||  |   |||||      | ||  ||| |  ||  | || || ||||||||||||||||| |||||||| ||||| ||||| |||||||| || ||||| ||||||
gtatgcttcttccccatttgtgtgtgtttcttgtcaatcaattgcaatggtctatttttctttgtgacttaaagttgtgtatgggtaaataatgatgtttccctatgaatatctctagaattgacagctttaatttcatgtgattacagGATTATGTTGCAACAAGGTGGTACAGGGCACCTGAATTGTGTGGTTCATTTTTCTCCAAG
















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|11413042|gb|BF425062.1|BF425062
EST:     GCTATTTTCTGGACA                         GATTATGTTGCAACCAGGTGGTATAGGGCTCCTGAGTTGTGTGGATCCNNN
genomic: GCTATTTTCTGGACAgtatgaatct ... ttgcttgcagGATTATGTTGCAACCAGGTGGTATAGGGCTCCTGAGTTGTGTGGATCCTTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catagctctctttctcagttcatctcgtcacctcttaatgtttgtttgcttgcagGATTATGTTGCAACCAGGTGGTATAGGGCTCCTGAGTTGTGTGGATCCTTTTTTTCCAAG
                                tcttaat  putative branch site (score: 3)
                                        tttgttt  CT-rich tract
                                  ttaatgttt  TA-rich tract