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'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggttcctctaatttcatccaggctttgtgtgctaaattgtttgatacttttgacattgatttggctttaagttgatttctatctggcatttctcagGTGGCTCTGAAATTTGAACATAGGAACAGTAAGGGCTGTAACTATGGCCCTCCTTACGAGTGGCAAGTATACAA

Basic information

species Glycine max
transcript GLYMA20G38770.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G38770.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv06s0004g01090.t01 (Vitis vinifera), 3'ss of exon 2
-----------gtaggttcctctaatttcatccaggctttgtgtgctaaattgt-ttgatacttttgacattgatttggctttaagttgatttct---atctggcatttctcagGTGGCTCTGAAATTTGAACATAGGAACAGTAAGGGCTGTAACTATGGCCCTCCTTACGAGTGGCAAGTATACAA
             || || ||        |   |   | ||| | | || | |  ||  |  | || | | | ||     | | | || |||  |   ||   |  ||| |||||| ||| ||||||| || || || ||||| || ||||| |||||||||||||| || |||||||| || |||||
gtaacctagtcccagctttcttactgactaataaaattgtgtatccgaattaggattagtgttattaaaagtaatcatattatgacttcattcttcttattgtgtttttatcagGTAGCTTTGAAATTCGAGCACAGAAACAGCAAAGGCTGCAACTATGGCCCTCCATATGAGTGGCAGGTGTACAA

upper sequence: GLYMA20G38770.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S66_174V6.1 (Physcomitrella patens), 3'ss of exon 2
---------------------------gtaggttcctctaatttcatccag-gctttg---tgtgctaaattgtttgatacttttgacattgatttggc--tttaagttgatttctatctggcatttctcagGTGGCTCTGAAATTTGAACATAGGAACAGTAAGGGCTGTAACTATGGCCCTCCTTACGAGTGGCAAGTATACAA
                              |     ||  ||| | |  || ||   |   |||| | | ||      ||  ||||   |   | |||   |  ||  ||| |  | | |      || ||||| ||| | || ||||||||| ||| ||| ||||| || || ||||| |||||||||||||||||||| |||||
gtactctttactctaattcgttgaggtccggtcgtgtcgtattccgtatagtgccgagggttgtgattatttagcgagtatctttgctttgtgtctggaagtacaaactgagtcttgttttcgtgctcgcagGTAGCTTTAAAGTTTGAACATCGGAGCAGCAAGGGTTGCAATTATGGTCCTCCTTACGAGTGGCAAGTTTACAA

upper sequence: GLYMA20G38770.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S208_44V6.1 (Physcomitrella patens), 3'ss of exon 2
---------------------------------------gtaggttcctctaatttcatccaggctttgtgtgctaaattg----tttgatacttttgacat--tga---tttggctttaagttgatttctatctggcatttctcagGT---GGCTCTGA--AATTTGAACATAGGAACAGTAAGGGCTGTAACTATGGCCCTCCTTACGAGTGGCAAGTATACAA
                                       || |   |  |   |||     | ||| ||     || || |     |||    | || | ||  | |   ||||   | | |||||  ||  |   |||  |  | |||    | ||  |  | || || ||| |||   |||| ||||||||  |||| |||||||||||||||||||| |||||
gtattcaatttcttataatttgttttgctctaaactttggtcgtagcggcatgtttgggaaatgctctgcacattacatcgaggtcttgtaggtattaatataataaatttttgtactcacgttgaactcgtttgtgcagGTTGCGGGTTGAAGTTCGAACAAGTTCGAGCATCGGAGTGGTAACGGCTGTAATCATGGTCCTCCTTACGAGTGGCAAGTTTACAA

upper sequence: GLYMA20G38770.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ38433 (Selaginella moellendorffii), 3'ss of exon 2
gtaggttcctctaatttcatccaggctttgtgtgctaaattgtttgatacttttgaca-ttgatttggctttaagttgatt--tctatctggcat-ttctcagGTGGCTCTGAAATTTGAACATAGGAACAGTAAGGGCTGTAACTATGGCCCTCCTTACGAGTGGCAAGTATACAA
                                   || | |||| ||   |||   || |||  |||||| |    | |       |||    || || |||||| ||| |||| |||||||| || | |||||| || || |||||||| ||||| || ||||||||||| |||| 
----------------------------------gtagactgttcgaagatttgctcagttggattggctcttttctcagcggctgatcaaagatgttgtcagGTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACAC

upper sequence: GLYMA20G38770.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ31718 (Selaginella moellendorffii), 3'ss of exon 2
gtaggttcctctaatttcatccaggctttgtgtgctaaattgtttgatacttttgaca-ttgatttggctttaagttgatttct-atctggcat-ttctcagGTGGCTCTGAAATTTGAACATAGGAACAGTAAGGGCTGTAACTATGGCCCTCCTTACGAGTGGCAAGTATACAA
                                   || | |||| ||   ||||  || |||  |||   ||   |      || |||    || || |||||| ||| |||| |||||||| || | |||||| || || |||||||| ||||| || ||||||||||| |||| 
----------------------------------gtagactgttcgaagattttctcagttggattgctcttttctcagcggctgatcaaagatgttgtcagGTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACAC

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|209707177|gb|BW656795.1|BW656795
EST:     AGGTTTTTGTTGGCCGTCGGGAGCGTGCAACAGGTGCTGGAGCTGTGGAG                         GTGGCTCTGAAATTTGAACATAGGAACAGTAAGGGCTGTAACTATGG
genomic: AGGTTTTTGTTGGCCGTCGGGAGCGTGCAACAGGTGCTGGAGCTGTGGAGgtaggttcct ... catttctcagGTGGCTCTGAAATTTGAACATAGGAACAGTAAGGGCTGTAACTATGG
EST: gi|120534535|gb|EH262668.1|EH262668
EST:     AGGTTTTTGTTGGCCGTCGGGAGCGTGCAACAGGTGCTGGAGCTGTGGAG                         GTGGCTCTGAAATTTGAACATAGGAACAGTAAGGGCTGTAACTATGGCCC
genomic: AGGTTTTTGTTGGCCGTCGGGAGCGTGCAACAGGTGCTGGAGCTGTGGAGgtaggttcct ... catttctcagGTGGCTCTGAAATTTGAACATAGGAACAGTAAGGGCTGTAACTATGGCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatacttttgacattgatttggctttaagttgatttctatctggcatttctcagGTGGCTCTGAAATTTGAACATAGGAACAGTAAGGGCTGTAACTATGGCCCTCCTTACGAGTGGCAAGTATACAA
                                             catttctc  CT-rich tract
             attgattt  TA-rich tract