Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaccttacctcaacaaagaaagtgtgataagtggcaacacacgtgttgcttttttggcccagcaataacacgtgtttttgtggtgtacaaaaatggacagGAATGGAGTTATTTAAGAGGTGGTCTCACAACTGTGGATCGTGACTATGGTTGGATCAATAACATTCACCATGACATTGGCACCCATGTTATTCACCATC

Basic information

species Glycine max
transcript GLYMA14G37350.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G37350.2 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os11g01340.2 (Oryza sativa), 3'ss of exon 6
aaccttacctcaacaaagaaagtgtgataagtggcaacac-acgtgttgcttttttggcccagcaataacac-gtgtttttgtggtgtacaaaaatggacagGAATGGAGTTATTTAAGAGGTGGTCTCACAACTGTGGATCGTGACTATGGTTGGATCAATAACATTCACCATGACATTGGCACCCATGTTATTCACCATC
    | | | |   | |     | | |       |  ||  | ||  |||||       |    ||||   | |    | ||      || |  ||   ||||||||||| ||  |  | ||||| || ||||| |||||||| ||||| || |||||||| ||||| ||||||||||||||||||||||| || ||||| |
--tatgagcactctatacttcctctcactctatacttcattaagttctgcttacaaacactgaaaatagggctgaacatctggcaatgaccactatttgcagGAATGGAGCTACCTCCGCGGTGGCCTGACAACGGTGGATCGGGACTACGGGTGGATCAACAACATCCACCATGACATTGGCACCCATGTCATCCACCACC

upper sequence: GLYMA14G37350.2 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os12g01370.1 (Oryza sativa), 3'ss of exon 6
------------------------------------------------------------------------------------aaccttacctcaacaaagaaagtgtgataagtggcaacacac---gtgttgcttttttggcccagcaataacac-gtgtttttgtggtgtacaaaaatggacagGAATGGAGTTATTTAAGAGGTGGTCTCACAACTGTGGATCGTGACTATGGTTGGATCAATAACATTCACCATGACATTGGCACCCATGTTATTCACCATC
                                                                                    | |||     ||    | |     |   |      |   ||    ||  |||||       |    ||||   | |    | ||      || |  ||   ||||||||||| ||  |  | ||||| || ||||| |||||||| ||||| || |||||||| ||||| ||||||||||||||||||||||| || ||||| |
gtatatcttttttctgtattgattggatcatagtttttccagaataaagcatgaaaagttgctgtaggttattgagttgggtgcagcctatgagcactctatacttcctctcactctatacttcattaagttctgcttacaaacactgaaaatagggctgaacatctggcaatgaccactatttgcagGAATGGAGCTACCTCCGCGGTGGCCTGACAACGGTGGATCGGGACTACGGGTGGATCAACAACATCCACCATGACATTGGCACCCATGTCATCCACCACC

upper sequence: GLYMA14G37350.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv06s0004g06730.t01 (Vitis vinifera), 3'ss of exon 7
-----------------------------------------------------------------aaccttacct--caacaaagaaagtgtgataagtggcaac-------acacgtgttgcttttttggcccagcaataacacg-tgtttttgtggt----gtacaaaaatgga-cagGAATGGAGTTATTTAAGAGGTGGTCTCACAACTGTGGATCGTGACTATGGTTGGATCAATAACATTCACCATGACATTGGCACCCATGTTATTCACCATC
                                                                 | |   | |   |||| || | ||  |     |   ||||       | | ||     || | | |    |  | | |    || ||| || ||     |      ||||| ||||||||||| ||| || |||| || || ||||| || |||||||||||||| ||| | || ||||| |||||||||||||||||||||||||| || ||||
gtactgataaacaaagatatggtcagaacactaatttgagttcttggattcttaacttgatggttagctgcagcctgcaaccaaaatagatttcaggggtccaaccttgctgagaagtacattttatgtagaatggatagagcctaatgctttagttgtcattatgttggtatggaacagGAATGGAGCTATCTACGAGGAGGGCTAACAACGGTTGATCGTGACTATGGCTGGTTTAACAACATCCACCATGACATTGGCACCCATGTTATACATCATC

upper sequence: GLYMA14G37350.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv06s0004g06720.t01 (Vitis vinifera), 3'ss of exon 7
--------aaccttacctc--aacaaagaaagtgtgataagtggcaacacacgtgttgcttttttggcc-cagcaataacacgtgtttttgtggtgtacaaaaatggacagGAATGGAGTTATTTAAGAGGTGGTCTCACAACTGTGGATCGTGACTATGGTTGGATCAATAACATTCACCATGACATTGGCACCCATGTTATTCACCATC
        ||    | | |       | |||  |   ||| |  | ||     | || ||| |||  |  || | | ||    ||| |||||| ||         | |||||||||||| ||||| || || || || || || || |||||||||||||| ||| | |||| ||| || ||| ||| |||||| |||||||| |||||||
gtactgataattgcatcccctgctcgacaaaaagccttaaatt-ctacttggatttttcttgtttaactgcaactagaatggatgtctttgtg-tg---------gaacagGAATGGAGCTATTTGAGGGGAGGGCTAACGACGGTTGATCGTGACTATGGATGGTTTAATAGCATCCAACATAACACTGGCACGCATGTTATACACCATC

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|8827170|gb|BE210900.1|BE210900
EST:     ACTTGCATCACCATGGTCATCATCAGAAACTGCCTTGGTATCGCGGCAAG                         GAATGGAGTTATTTAAGAGGTGGTCTCACAACTGTGGATCGTGACTATGGT
genomic: ACTTGCATCACCATGGTCATCATCAGAAACTGCCTTGGTATCGCGGCAAGgtaacaaaaa ... aaatggacagGAATGGAGTTATTTAAGAGGTGGTCTCACAACTGTGGATCGTGACTATGGT
EST: gi|20814524|gb|BQ299002.1|BQ299002
EST:     ATCAGAAACTGCCTTGGTATCGCGGCAAG                         GAATGGAGTTATTTAAGAGGTGGTCTCACAACTGTGGATCGTGACTATGGT
genomic: ATCAGAAACTGCCTTGGTATCGCGGCAAGgtaacaaaaa ... aaatggacagGAATGGAGTTATTTAAGAGGTGGTCTCACAACTGTGGATCGTGACTATGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgcttttttggcccagcaataacacgtgtttttgtggtgtacaaaaatggacagGAATGGAGTTATTTAAGAGGTGGTCTCACAACTGTGGATCGTGACTATGGTTGGATCAATAACATTCACCATGACATTGGCACCCATGTTATTCACCATC
                 caataac  putative branch site (score: 2)
                                        tacaaaaat  TA-rich tract