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'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgttttcatatgcattgggatatgatccagtgccaactggtgccaaacttttttaaatcacactttcaataacttttatccatctaaatagaaatgcttcaactaaactaggaaactcaatcttgtagGTGATTATGAGGCCTATGTTCGGAGCATTTGGCAAGGCTGGTAGTTCACACTCCATTGCTTTTGTGAGCAAG

Basic information

species Glycine max
transcript GLYMA11G37250.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G37250.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv01s0010g02760.t01 (Vitis vinifera), 3'ss of exon 16
gtaatgttttcatatgcattgggatatgatccagtgccaactggtgc-caaacttttttaaatcacactttcaataacttttatcca--tctaaatagaaatgcttcaactaaactaggaaactcaatct--tgtagGTGATTATGAGGCCTATGTTCGGAGCATTTGGCAAGGCTGGTAGTTCACACTCCATTGCTTTTGTGAGCAAG
                                      || ||     ||     |||  | ||| |     ||  |   | |   |  | | ||| ||   | |||   |    |   ||||   ||||  || ||||||| ||||| || ||||| |||||||||||||||||||| ||| |  |||| ||||||||||| ||||||
------------------------------------tgaagtgaaattcaggggctttccactcagatgaataaagaacataagagaaatatgaatggatcagtttccctttttatta-aaacatgatctgatgcagGTGATGATGAGACCCATGTTTGGAGCATTTGGCAAGGCTGGAAGTGCCAACTCTATTGCTTTTGTCAGCAAG
















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|31475006|gb|CD417034.1|CD417034
EST:     CATATGCTAACATGGGTGACCCAAATGCAAGCATCCCAACACCTGAACCG                         GTGATTATGAGGCCTATGTTCGGAGCATTTGGCAAGGCTGGTAGTTCACAC
genomic: CATATGCTAACATGGGTGACCCAAATGCAAGCATCCCAACACCTGAACCGgtaatgtttt ... aatcttgtagGTGATTATGAGGCCTATGTTCGGAGCATTTGGCAAGGCTGGTAGTTCACAC
EST: gi|8283731|gb|BE021290.1|BE021290
EST:     CATATGCTAACATGGGTGACCCAAATGCAAGCATCCCAACACCTGAACCG                         GTGATTATGAGGCCTATGTTCGGAGCATTTGGCAAGGCTGGTAGTTCACAC
genomic: CATATGCTAACATGGGTGACCCAAATGCAAGCATCCCAACACCTGAACCGgtaatgtttt ... aatcttgtagGTGATTATGAGGCCTATGTTCGGAGCATTTGGCAAGGCTGGTAGTTCACAC
EST: gi|151405862|gb|EV275677.1|EV275677
EST:     CATATGCTAACATGGGTGACCCAAATGCAAGCATCCCAACACCTGAACCG                         GTGATTATGAG-CCTATG
genomic: CATATGCTAACATGGGTGACCCAAATGCAAGCATCCCAACACCTGAACCGgtaatgtttt ... aatcttgtagGTGATTATGAGGCCTATG
EST: gi|27425580|gb|CA937100.1|CA937100
EST:     CATATGCTAACATGGGTGACCCAAATGCAAGCATCCCAACACCTGAACCG                         GTGATTATGAGGCCTATGTTCGGAGCATTTGGCAAGGCTGGTAGTTCACAC
genomic: CATATGCTAACATGGGTGACCCAAATGCAAGCATCCCAACACCTGAACCGgtaatgtttt ... aatcttgtagGTGATTATGAGGCCTATGTTCGGAGCATTTGGCAAGGCTGGTAGTTCACAC
EST: gi|7590807|gb|AW706551.1|AW706551
EST:     AACATGGGTGACCCAAATGCAAGCATCCCAACACCTGAACCG                         GTGATTATGAGGCCTATGTTCGGAGCATTTGGCAAGGCTGGTAGTTCACAC
genomic: AACATGGGTGACCCAAATGCAAGCATCCCAACACCTGAACCGgtaatgtttt ... aatcttgtagGTGATTATGAGGCCTATGTTCGGAGCATTTGGCAAGGCTGGTAGTTCACAC
EST: gi|16345257|gb|BI970852.1|BI970852
EST:     CATATGCTAACATGGGTGACCCAAATGCAAGCATCCCAACACCTGAACCG                         GTGATTATGAGGCCTATGTTCGGAGCATTTGGCAAGGCTGGTAGTTCACAC
genomic: CATATGCTAACATGGGTGACCCAAATGCAAGCATCCCAACACCTGAACCGgtaatgtttt ... aatcttgtagGTGATTATGAGGCCTATGTTCGGAGCATTTGGCAAGGCTGGTAGTTCACAC
EST: gi|16345254|gb|BI970849.1|BI970849
EST:     CATATGCTAACATGGGTGACCCAAATGCAAGCATCCCAACACCTGAACCG                         GTGATTATGAGGCCTATGTTCGGAGCATTTGGCAAGGCTGGTAGTTCACAC
genomic: CATATGCTAACATGGGTGACCCAAATGCAAGCATCCCAACACCTGAACCGgtaatgtttt ... aatcttgtagGTGATTATGAGGCCTATGTTCGGAGCATTTGGCAAGGCTGGTAGTTCACAC
EST: gi|16277034|gb|BI942169.1|BI942169
EST:     CATATGCTAACATGGGTGACCCAAATGCAAGCATCCCAACACCTGAACCG                         GTGATTATGAGGCCTATGTTCGGAGCATTTGGCAAGGCTGGTAGTTCACAC
genomic: CATATGCTAACATGGGTGACCCAAATGCAAGCATCCCAACACCTGAACCGgtaatgtttt ... aatcttgtagGTGATTATGAGGCCTATGTTCGGAGCATTTGGCAAGGCTGGTAGTTCACAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttatccatctaaatagaaatgcttcaactaaactaggaaactcaatcttgtagGTGATTATGAGGCCTATGTTCGGAGCATTTGGCAAGGCTGGTAGTTCACACTCCATTGCTTTTGTGAGCAAG
                           aactaaa  putative branch site (score: 2)
        atctaaatagaaat  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatgttttcatatgcattgggatatgatccagtgccaactggtgccaaacttttttaaatcacactttcaataacttttatccatctaaatagaaatgcttcaactaaactaggaaactcaatcttgtagGTGATTATGAGGCCTATGTTCGGAGCATTTGGCAAGGCTGGTAGTTCACACTCCATTGCTTTTGTGAGCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG