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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaagtagtatgacatcttgctgtgtcctctgtctaaattaattagttggctgttaaagctttttatttattcttatagctatctaaacctatttgatgaacatcttagtgtacttggcgaagttatttaacagAGGGGAATGAACAGAAGAGATTAATTGGCATGGCCCGTGCTACGTCTGACCATGCCTTCAATGCCACAATTTGGGATGTCCTAGTTGATCCTGGCTACCA

Basic information

species Glycine max
transcript GLYMA09G40890.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G40890.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os05g40260.1 (Oryza sativa), 3'ss of exon 4
gtaaaagtagtatgacatcttgctgtgtcctctgtctaaattaattagttggctgttaaagctttttatttattcttatagctatct----aaacctatt--------tgatgaacatcttagtgtacttggcgaagttatttaacagAGGGGAATGAACAGAAGAGATTAATTGGCATGGCCCGTGCTACGTCTGACCATGCCTTCAATGCCACAATTTGGGATGTCCTAGTTGATCCTGGCTACCA
||          |    || |  |  |      || ||   |  | ||  |   || ||| |   |  | || ||| |    ||| |    |||   |||        |||||||||||||||||||||||  |||||||||| ||||||||  | ||   ||||  | ||||||| ||||| || || || || ||||||||||| ||||| || ||||||||||| || ||||| |||   || ||
gtgcttacctcgttgtttcattattagcggctcgtttatgatcctaagc-gttagtcaaaccacatcttctaatctgaagattatttgcagaaattcatttttctagatgatgaacatcttagtgtacttgtagaagttatttgacagAGGGAGAAGAGAGGAAGCAACTAATTGGTATGGCGCGAGCAACTTCAGACCATGCCTTTAATGCTACCATTTGGGATGTTCTCGTTGACCCTTCATATCA

upper sequence: GLYMA09G40890.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv08s0056g00580.t01 (Vitis vinifera), 3'ss of exon 3
------------------------------------------gtaaaagtagt-atgacatcttgctgtgtcctctgtctaaattaattagttggctgttaaagctttttatttattcttatagctatctaaacctatttgatgaacatcttagtgtacttggcgaagttatttaacagAGGGGAATGAACAGAAGAGATTAATTGGCATGGCCCGTGCTACGTCTGACCATGCCTTCAATGCCACAATTTGGGATGTCCTAGTTGATCCTGGCTACCA
                                           ||  | | || |||  |  ||  | | | | ||   | | | |   |     ||  | |    ||   ||||||  |||  || | |     |  |     |     | | | |||||||  ||||||||| |||||| ||||||| || ||||   | |||||||||||||||||||| || || |||||||||||||||||||||||||||||||| |||||||||   || ||
gtacttactaaatatgatgttgttacattactctccaattcattacgattggttatgttagattagtatctgcacttgtttattcatccaa--aactacttac-tgttgagtttatttctatttctttttttttttcctcatatagatgatgaatatacttggaaaagttatttgacagAGAGGAATGAGCAAAAGAAGCTTATTGGCATGGCCCGTGCTACATCAGATCATGCCTTCAATGCCACAATTTGGGATGTCCTTGTTGATCCTTCATATCA

upper sequence: GLYMA09G40890.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S332_23V6.1 (Physcomitrella patens), 3'ss of exon 6
-------------------------------------------------------gtaaaagtagta-tgacatcttgctgtgtcctctgtctaaattaattagttggctgttaaagctttttatttattcttatagctatctaaacctat--ttgatgaacatcttagtgtacttggcgaagtt--atttaacagAGGGGAATGAAC-------AGAAGAG-----ATTAATTGGCATGGCCCGTGCTACGTCTGACCATGCCTTCAATGCCACAATTTGGGATGTCCTAGTTGATCCTGGCTACCA
                                                       ||| |  | | |   |  | ||  |   ||| |  | | | ||    ||| |  | |||     ||||||||||| ||| |  |||  ||    |   || ||   | || | |  |  | | | | | |  |   |||||| ||  | || |       |||  ||     | | |||||||||||||| ||||| |||||||| ||||||||||| || |||||||| || || || ||            
gtaaccttctaactcgaacctcgttttgttgtacatccttgttattattgtccatgtagaccttgaagccatgtgttctttaatccgcactttcacttgcaaagtcgctttttattttattttatttatt-ttaaatgtattcaacatgacgattcatactcttccttgaattatggactatgatggaaggaacagATGGTGAAGATCCCGTTGTAGAGAAGCGAGAACTTATTGGCATGGCCCGGGCTACATCTGACCACGCCTTCAATGCTACCATTTGGGACGTGCTTGTAGA------------

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|15288292|gb|BI472183.1|BI472183
EST:     TAGCTATATAGTGGCCTCACTGCATTCTATAAGAAAGTCACCTGTGTCTG                         AGGGGAATGAACAGAAGAGATTAATTGGCATGGTCCGTGCTACGTCTGACC
genomic: TAGCTATATAGTGGCCTCACTGCATTCTATAAGAAAGTCACCTGGGTCAGgtaaaagtag ... tatttaacagAGGGGAATGAACAGAAGAGATTAATTGGCATGGCCCGTGCTACGTCTGACC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatctaaacctatttgatgaacatcttagtgtacttggcgaagttatttaacagAGGGGAATGAACAGAAGAGATTAATTGGCATGGCCCGTGCTACGTCTGACCATGCCTTCAATGCCACAATTTGGGATGTCCTAGTTGATCCTGGCTACCA
                                         aagttatttaa  TA-rich tract