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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttatttatgaattctacctataaaaccaaactgtttgaaatgtatgattatgctaaaatatatgtaattgtagGCATTATCAGTGGGAAGCGATAGTAATGGAAGTGGCATTGTGGCTCTTCTTGAAGTAGCTAGGTTGTTTTCTCTCTTATATTCTAATCCAAAGACAAGAG

Basic information

species Glycine max
transcript GLYMA11G18710.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G18710.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G021784_T01 (Zea mays), 3'ss of exon 5
gtatgtt-atttatgaattct--acctataaaaccaaactgtttgaaatgtatgattatgctaaaatatatgtaattgtagGCATTATCAGTGGGAAGCGATAGTAATGGAAGTGGCATTGTGGCTCTTCTTGAAGTAGCTAGGTTGTTTTCTCTCTTATATTCTAATCCAAAGACAAGAG
||||||| ||  | |  |||      | |      ||  | ||  | |||| |      | |||  |  || |  |   ||||| | || ||||||||||| || |||||||||||  ||||||||||||| ||  | || ||  | ||||| |   | ||||| ||||| |||||||| |
gtatgtttatccaagtgttcccagaatgtttgttaaagttcttctagatgtcttg----gataacgtggattt--tctcagGCACTTTCTGTGGGAAGCGACAGCAATGGAAGTGGAGTTGTGGCTCTTCTAGAGATTGCGAGACTATTTTCACGTCTGTATTCAAATCCTAAGACAAGGG

upper sequence: GLYMA11G18710.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G44330.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatgttatttatgaattctacctataaaaccaaactgtttgaaatgtatgattatgctaaaatatatgtaattgtagGCATTATCAGTGGGAAGCGATAGTAATGGAAGTGGCATTGTGGCTCTTCTTGAAGTAGCTAGGTTGTTTTCTCTCTTATATTCTAATCCAAAGACAAGAG
|||||| || |  | | |  | || |   |||  | | |     |  ||        || | | |  ||||  |||||||||||||||| ||||| || || |||||||||||  ||||||| ||||||||||| ||||| || |||||  |  | || || ||||| ||||| ||||
gtatgtaatatgagtagtggatct-tcttaccgtaatatcaagtacatac-------ctgacaaacttgtatatgtagGCATTATCAGTTGGAAGTGACAGCAATGGAAGTGGGGTTGTGGCGCTTCTTGAAGTGGCTAGATTATTTTCCGTTCTGTACTCAAATCCCAAGACGAGAG

upper sequence: GLYMA11G18710.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv06s0080g00880.t01 (Vitis vinifera), 3'ss of exon 5
----gtatgttatttatgaa---ttctacctataaaaccaaactgtttgaaatgtatgattatgctaaaatatatgtaattgtagGCATTATCAGTGGGAAGCGATAGTAATGGAAGTGGCATTGTGGCTCTTCTTGAAGTAGCTAGGTTGTTTTCTCTCTTATATTCTAATCCAAAGACAAGAG
    |||| ||  || | ||   | ||| ||| | ||  ||||| ||| |    ||| | | |   | || |||| |  || |||||||| ||||||||||| ||||| |||||||||||  ||||||| ||||||||  |||||||||| || |||||  | ||||| ||||| ||||||||||
gtatgtattttcctttttaacattcctatctaaataaataaact-ttttagccatataaatgtctgagaaaatatattttt-tagGCATTGTCAGTGGGAAGTGATAGCAATGGAAGTGGAGTTGTGGCACTTCTTGAGATAGCTAGGTTATTCTCTCTACTTTATTCAAATCCTAAGACAAGAG

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|11687645|gb|BF595321.1|BF595321
EST:     TACCCACCATTGCAATAGTTGCTTCATATGACACCTTTGGGGCTGCTCCT                         GCATTATCAGTGGGAAGCGATAGTAATGGAGGTGGCATTGTGGCTCTTCTT
genomic: TACCCACCATTGCAATAGTTGCTTCATATGACACCTTTGGGGCTGCTCCTgtatgttatt ... gtaattgtagGCATTATCAGTGGGAAGCGATAGTAATGGAAGTGGCATTGTGGCTCTTCTT
EST: gi|9259671|gb|BE347818.1|BE347818
EST:     TACCCACCATTGCAATAGTTGCTTCATATGACACCTTTGGGGCTGCTCCT                         GCATTATCAGTGGGAAGCGATAGTAATGGAAGTGGCATTGTGGCTCTTCTT
genomic: TACCCACCATTGCAATAGTTGCTTCATATGACACCTTTGGGGCTGCTCCTgtatgttatt ... gtaattgtagGCATTATCAGTGGGAAGCGATAGTAATGGAAGTGGCATTGTGGCTCTTCTT
EST: gi|8284372|gb|BE021931.1|BE021931
EST:     TACCCACCATTGCAATAGTTGCTTCATATGACACCTTTGGGGCTGCTCCT                         GCATTATCAGTGGGAAGCGATAGTAATGGAAGTGGCATTGTGGCTCTTCTT
genomic: TACCCACCATTGCAATAGTTGCTTCATATGACACCTTTGGGGCTGCTCCTgtatgttatt ... gtaattgtagGCATTATCAGTGGGAAGCGATAGTAATGGAAGTGGCATTGTGGCTCTTCTT
EST: gi|18039922|gb|BM308216.1|BM308216
EST:     TACCCACCATTGCAATAGTTGCATCATATGACACCTTTGGGGCTGCTCCT                         GCATTATCAGTGGGAAGCGATAGTAATGGAAGTGGCATTGTGGCTCTTCTT
genomic: TACCCACCATTGCAATAGTTGCTTCATATGACACCTTTGGGGCTGCTCCTgtatgttatt ... gtaattgtagGCATTATCAGTGGGAAGCGATAGTAATGGAAGTGGCATTGTGGCTCTTCTT
EST: gi|151406228|gb|EV276043.1|EV276043
EST:     TACCCACCATTGCAATAGTTGCTTCATATGACACCTTTGGGGCTGCTCCT                         GCATTATCAGTGGGAAGCGATAGTAATGGAAGTGGCATTGTGGCTCTTCTT
genomic: TACCCACCATTGCAATAGTTGCTTCATATGACACCTTTGGGGCTGCTCCTgtatgttatt ... gtaattgtagGCATTATCAGTGGGAAGCGATAGTAATGGAAGTGGCATTGTGGCTCTTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tataaaaccaaactgtttgaaatgtatgattatgctaaaatatatgtaattgtagGCATTATCAGTGGGAAGCGATAGTAATGGAAGTGGCATTGTGGCTCTTCTTGAAGTAGCTAGGTTGTTTTCTCTCTTATATTCTAATCCAAAGACAAGAG
                                tgctaaa  putative branch site (score: 2)
                        tatgattatgctaaaa  TA-rich tract