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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgaaattttatgcacacgtttaggtattcatcattttaaaacagaagtgccattattctgtattttaattgcagGGTCTTGCTCGATCAATGCCAACAAGTGGTGCTTTGGACCGTGTTGCTGAAAAATTGGACCTCCCTTTCTTTGAG

Basic information

species Glycine max
transcript GLYMA20G29230.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G29230.1 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os10g11140.2 (Oryza sativa), 3'ss of exon 14
--gttgaaattttatgcac----acgttt---------aggtattcatcattttaaa-acagaagtg--ccattattctgtattttaattgcagGGTCTTGCTCGATCAATGCCAACAAGTGGTGCTTTGGACCGTGTTGCTGAAAAATTGGACCTCCCTTTCTTTGAG
    ||| || |||  ||     | ||||          | ||||   |   | ||| |||  | ||  |  ||||  |  ||  |   | |||||||||||| ||||||||||||| ||||||||| | || ||||| ||||| |||||| |  | || |||||||||
gtaatgagatgttacacattataatgtttttctaaataggatattagactcatcaaagacaagaatgatctcttatgtttgatactttcttcagGGTCTTGCTAGATCAATGCCAACGAGTGGTGCTCTTGATCGTGTAGCTGATAAATTGAATGTTCCGTTCTTTGAG

upper sequence: GLYMA20G29230.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv16s0022g02320.t01 (Vitis vinifera), 3'ss of exon 14
---------------------------------gttgaaattttatgcacacgtttaggtattcatcatt---ttaaaacagaagtgccatt----------attctgtattttaatt--gcagGGTCTTGCTCGATCAATGCCAACAAGTGGTGCTTTGGACCGTGTTGCTGAAAAATTGGACCTCCCTTTCTTTGAG
                                  |        | || |     ||| | |   |   |    |||||| ||||    | |           ||| | | || || ||  | ||||| | |||||||| |||||||| ||||||||| | || ||||||||||||||||||   || || |||||||||
gtaggaaagttgtgctgttttttcttggaaggtctccctccactgtgtatgaaattaagaaaaaaatgtaaaattaaaaaagaaacttcctcttttaagcacatttttttttctatttttgtagGGTTTAGCTCGATCTATGCCAACGAGTGGTGCTCTTGATCGTGTTGCTGAAAAATTGACTCTTCCATTCTTTGAG
















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|120529538|gb|EH257672.1|EH257672
EST:     TTGCAGCCAATGCAAGAGAAGCGGTTCCATACTTCAAGAATGGTGTTAAG                         GGTCTTGCTCGATCAATGCCAACAAGTGGTGCTTTGGACCGTGTTGCTGAA
genomic: TTGCAGCCAATGCAAGAGAAGCGGTTCCATACTTCAAGAATGGTGTTAAGgttgaaattt ... ttaattgcagGGTCTTGCTCGATCAATGCCAACAAGTGGTGCTTTGGACCGTGTTGCTGAA
EST: gi|14125575|gb|BG790013.1|BG790013
EST:     TTGCAGCCAATGCAAGAGAAGCGGTTCCATACTTCAAGAATGGTGTTAAG                         GGTCTTGCTCGATCAATGCCAACAAGTGGTGCTTTGGACCGTGTTGCTGAA
genomic: TTGCAGCCAATGCAAGAGAAGCGGTTCCATACTTCAAGAATGGTGTTAAGgttgaaattt ... ttaattgcagGGTCTTGCTCGATCAATGCCAACAAGTGGTGCTTTGGACCGTGTTGCTGAA
EST: gi|120529768|gb|EH257902.1|EH257902
EST:     TTGCAGCCAATGCAAGAGAAGCGGTTCCATACTTCAAGAATGGTGTTAAG                         GGTCTTGCTCGATCAATGCCAACAAGTGGTGCTTTGGACCGTGTTGCTGAA
genomic: TTGCAGCCAATGCAAGAGAAGCGGTTCCATACTTCAAGAATGGTGTTAAGgttgaaattt ... ttaattgcagGGTCTTGCTCGATCAATGCCAACAAGTGGTGCTTTGGACCGTGTTGCTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaggtattcatcattttaaaacagaagtgccattattctgtattttaattgcagGGTCTTGCTCGATCAATGCCAACAAGTGGTGCTTTGGACCGTGTTGCTGAAAAATTGGACCTCCCTTTCTTTGAG
                                           ttttaat  putative branch site (score: 3)
                                attattctgtatttta  TA-rich tract