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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgcaccattgtgtgaccatgttgaacggttacatttatcaattatgttctgacttttatgcttttgagtgggaaattgcaaattgccatctaggtttctccctaaacctgttgctgacttattttatctactttgaataagGACTATGTTGCAACTCGGTGGTACCGTGCACCTGAATTATGTGGTTCTTTTTTCTCAAAA

Basic information

species Glycine max
transcript GLYMA05G33980.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G33980.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G73670.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgagtgcaccattgtgtgaccatgttgaacggttacatttatcaattatgttctgacttttatgcttttgagtgggaaattgcaaattgccatctaggt----ttctccctaaac-ctgttg--ctgacttattttatctactttgaataagGACTATGTTGCAACTCGGTGGTACCGTGCACCTGAATTATGTGGTTCTTTTTTCTCAAAA
                                                    |  | | |||||      || || ||||    || |||| ||   |||    ||||   |||   ||| ||  || |||  |  || ||   ||  |  |||| |||||||| ||||||||||||||||| |||||| | ||||| || ||||||||||||
---------------------------------------------------gtgagtcatttatcaccaagactgtgaaagcttaagttgc-attagggtaacattctgtttaagtgctggtggactcactcttactaactctgtttcaatagGATTATGTTGCTACTCGGTGGTACCGTGCCCCTGAACTCTGTGGATCATTTTTCTCAAAA

upper sequence: GLYMA05G33980.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 3
gtgagtgcaccattgtgtgaccatgttgaacg---gttacatttatcaattatgttctgacttttatgcttttgagtgggaaattgcaaattgccatctaggtttctc---cctaaacctgttgctgacttattttatctactttgaataagGACTATGTTGCAACTCGGTGGTACCGTGCACCTGAATTATGTGGTTCTTTTTTCTCAAAA
  |  || |   |||    |  |      ||    | | ||||| |  ||   |    ||   |||    || |  |     |||  |   | |  |  |  |||      |   || || |  || |     ||||| ||||||    ||||||||||||||||| || ||||||||||| |||||| | ||||| || |||||||| || 
--gtatgtagtcttgccaaagtactcctgacatttgctgcatttctgcatacggccgagaaaattac---ttagtctcttttattttatgatactttaaaatttttgaaagctagaaactttaactaatcatatttatttactttttcaaagGACTATGTTGCAACCCGATGGTACCGTGCTCCTGAACTTTGTGGCTCCTTTTTCTCCAAG
















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|192306378|gb|FG996138.1|FG996138
EST:     GGCTTGCTCGAGTTTCATTTAATGATGCTCCATCAGCTATATTCTGGACT                         GACTATGTTGCAACTCGGTGGTACCGTGCACCTGAATTATGTGGTCCTTTT
genomic: GGCTTGCTCGAGTTTCATTTAATGATGCTCCATCAGCTATATTCTGGACTgtgagtgcac ... tttgaataagGACTATGTTGCAACTCGGTGGTACCGTGCACCTGAATTATGTGGTTCTTTT
EST: gi|5175437|gb|AI759770.1|AI759770
EST:     GGCTTGCTCGAGTTTCATTTAATGATGCTCCATCAGCTATATTCTGGACT                         GACTATGTTGCAACTCGGTGGTACCGTGCACCTGAATTATGTGGNTCTTNT
genomic: GGCTTGCTCGAGTTTCATTTAATGATGCTCCATCAGCTATATTCTGGACTgtgagtgcac ... tttgaataagGACTATGTTGCAACTCGGTGGTACCGTGCACCTGAATTATGTGGTTCTTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catctaggtttctccctaaacctgttgctgacttattttatctactttgaataagGACTATGTTGCAACTCGGTGGTACCGTGCACCTGAATTATGTGGTTCTTTTTTCTCAAAA
                         tgctgac  putative branch site (score: 2)
                                        tctacttt  putative PPT
                                ttattttatctacttt  TA-rich tract