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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgttttttcttcttcttattttacgaatgtaataattaattgttttcatgacattcttaatcttcactccttaacattttttaggttctttttcttgaaaacagTGGATATTCTGAAGCTTCTTCTACCAGATAACTGGAAAGGGATTCCATATTTCCAGAGATTGGATAAATTAGTTGGCGTCCCAGTCATAAATGTTCACAT

Basic information

species Glycine max
transcript GLYMA18G00720.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G00720.2 (Glycine max), 3'ss of exon 4
lower sequence: AT4G14210.2 (Arabidopsis thaliana), 3'ss of exon 9
gtgttttttcttcttcttattttacgaatgtaataattaattgttttcatgacattcttaatcttc-actccttaacattttttaggttctttttcttgaaaacagTGGATATTCTGAAGCTTCTTCTACCAGATAACTGGAAAGGGATTCCATATTTCCAGAGATTGGATAAATTAGTTGGCGTCCCAGTCATAAATGTTCACAT
                    ||||| |   |  |   |  | | ||| |  |      |  | | |  ||  |||| || || |   |  |||||||||     ||| ||||| |||||||| ||| ||||||||  ||||||||  || || || ||| ||| |||||||||||||||||| || ||||| || |||||||| ||
-------------------gtttactaccatgctgtcttgtgggtttaacaattcatctggtatcctgcttattaatatgttgtttatg-tttttcttg----tagTCGATATCCTGAAGCTCCTTTTACCAGATCCCTGGAAAGAAATACCGTACTTCAAGAAATTGGATAAATTAGTTGGAGTACCAGTTATTAATGTTCATAT

upper sequence: GLYMA18G00720.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 9
gtgttttttcttcttcttattttacgaatgtaataattaattgttttcatgacattcttaatcttcactcct-taacattttttaggttctttttcttgaaaacagTGGATATTCTGAAGCTTCTTCTACCAGATAACTGGAAAGGGATTCCATATTTCCAGAGATTGGATAAATTAGTTGGCGTCCCAGTCATAAATGTTCACAT
|| |   || |   |||   |||  || ||||      | || | ||||||   |   ||| ||   || || ||   ||  ||  |   ||| | ||  || |||| ||||| |||||||||||| | || |   ||||||||| ||||||||| |||  ||||||||||||||||||||| || ||||| || |||||||| ||
gtatgcattttaactctctcttt--gattgta-----catttttcttcatg---tgtataacctcagcttctctattgttgcttttgaaatttgtttt--aatcagTTGATATCCTGAAGCTTCTTTTGCCGGGAGACTGGAAAGAGATTCCATACTTCAGGAGATTGGATAAATTAGTTGGAGTTCCAGTGATCAATGTTCATAT
















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|151400218|gb|EV270032.1|EV270032
EST:     AAATAATGGGAAAGTGATGGAAGGGGATGCTTATGTGTTTGCAACTCCAG                         TGGATATTCTGAAGCTTCTTCTACCAGATAACTGGAAAGGGATTCCATATT
genomic: AAATAATGGGAAAGTGATGGAAGGGGATGCTTATGTGTTTGCAACTCCAGgtgttttttc ... ttgaaaacagTGGATATTCTGAAGCTTCTTCTACCAGATAACTGGAAAGGGATTCCATATT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gacattcttaatcttcactccttaacattttttaggttctttttcttgaaaacagTGGATATTCTGAAGCTTCTTCTACCAGATAACTGGAAAGGGATTCCATATTTCCAGAGATTGGATAAATTAGTTGGCGTCCCAGTCATAAATGTTCACAT
                   ccttaac  putative branch site (score: 3)
                                    ttctttttctt  putative PPT
                     ttaacatttttta  TA-rich tract