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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggtttagttaatccttgcaattaaattgtgttcaattgtctgctttgcttgttgtatgacacattaccttggcaatcatgttcaattttaaaccgatatctcttgtttctatctctgtagGGGATTTTCATATCAAGCTCGGGTGATCAAGCACATACATTGAGTGGAAATG

Basic information

species Glycine max
transcript GLYMA13G26280.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G26280.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv13s0084g00660.t01 (Vitis vinifera), 3'ss of exon 8
gtgaggtttagttaatccttgcaattaaattgtgttcaattgtctgctttgcttgttgtatgacacattaccttggcaatcatgttcaattttaaaccgatatctcttgtttctatctctgtagGGGATTTTCATATCAAGCTCGGGTGATCAAGCACATACATTGAGTGGAAATG
||  | ||| || | | ||||   || |    |   |  |||| |  | || | ||| ||    | || |   |     | | ||  || |        || |  | || ||      |||||||| ||||| || |||||||| || |||||||| ||| || ||||||||||||
gttggctttggtcatttcttg--gtttacccattgcc--ttgtttattctgttggtt-tacacaaaatcattgtctttgtgaggtgtaagtagcttgtaatttaccatgctttatgtcctgtagGGTATTTTTATTTCAAGCTCAGGAGATCAAGCCCATTCAATGAGTGGAAATG
















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|192325140|gb|FK017526.1|FK017526
EST:     GTTTGAAGCTGACCCAACTAGAGCAAGAGCTTCAGCGAGCTAG-CAGCAG                         GGGATTTTCATATCAAGCTCGGGTGATCAAGCACATACATTGAGTGGAAAT
genomic: GTTTGAAGCTGACCCAACTAGAGCAAGAGCTTCAGCGAGCTAGGCAGCAGgtgaggttta ... atctctgtagGGGATTTTCATATCAAGCTCGGGTGATCAAGCACATACATTGAGTGGAAAT
EST: gi|192329072|gb|FK021425.1|FK021425
EST:     GTTTGAAGCTGACCCAACTAGAGCAAGAGCTTCAGCGAGCTAGGCAGCAG                         GGGATTTTCATATCAAGCTCGGGTGATCAAGCACATACATTGAGTGGAAAT
genomic: GTTTGAAGCTGACCCAACTAGAGCAAGAGCTTCAGCGAGCTAGGCAGCAGgtgaggttta ... atctctgtagGGGATTTTCATATCAAGCTCGGGTGATCAAGCACATACATTGAGTGGAAAT
EST: gi|19346060|gb|BM890940.1|BM890940
EST:     GTTTGAAGCTGACCCAACTAGAGCAAGAGCTTCAGCGAGCTAGGCAGCAG                         GGGATTTTCATATCAAGCTCGGGTGATCAAGCACATACATTGAGTGGAAAT
genomic: GTTTGAAGCTGACCCAACTAGAGCAAGAGCTTCAGCGAGCTAGGCAGCAGgtgaggttta ... atctctgtagGGGATTTTCATATCAAGCTCGGGTGATCAAGCACATACATTGAGTGGAAAT
EST: gi|13252262|gb|BG363165.1|BG363165
EST:     CTGACCCAACTAGAGCAAGAGCTTCAGCGAGCTAGGCAGCAG                         GGGATTTTCATATCAAGCTCGGGTGATCAAGCACATACATTGAGTGGAAAT
genomic: CTGACCCAACTAGAGCAAGAGCTTCAGCGAGCTAGGCAGCAGgtgaggttta ... atctctgtagGGGATTTTCATATCAAGCTCGGGTGATCAAGCACATACATTGAGTGGAAAT
EST: gi|254339871|gb|GR857996.1|GR857996
EST:     GTTTGAAGCTGACCCAACTAGAGCAAGAGCTTCAGCGAGCTAGGCAGCAG                         GG-ATTTTCATATCAAGCTCGGGTGATCAAGCCACATACATTGA
genomic: GTTTGAAGCTGACCCAACTAGAGCAAGAGCTTCAGCGAGCTAGGCAGCAGgtgaggttta ... atctctgtagGGGATTTTCATATCAAGCTCGGGTGATCAAGC-ACATACATTGA
EST: gi|193328847|gb|FK293551.1|FK293551
EST:     AAGCTGACCCAACTAGAGCAAGAGCTTCAGCGAGCTAGGCAGCAG                         GGGATTTTCATATCAAGCTCGGGTGATCAAGCACATACATTGAGTGGAAAT
genomic: AAGCTGACCCAACTAGAGCAAGAGCTTCAGCGAGCTAGGCAGCAGgtgaggttta ... atctctgtagGGGATTTTCATATCAAGCTCGGGTGATCAAGCACATACATTGAGTGGAAAT
EST: gi|192324640|gb|FK018736.1|FK018736
EST:     GTTTGAAGCTGACCCAACTAGAGCAAGAGCTTCAGCGAGCTAGGCAGCAG                         GGGATTTTCATATCAAGCTCGGGTGATCAAGCACATACATTGAGTGGAAAT
genomic: GTTTGAAGCTGACCCAACTAGAGCAAGAGCTTCAGCGAGCTAGGCAGCAGgtgaggttta ... atctctgtagGGGATTTTCATATCAAGCTCGGGTGATCAAGCACATACATTGAGTGGAAAT
EST: gi|9565078|gb|BE474587.1|BE474587
EST:     GTTTGAAGCTGACCCAACTAGAGCAAGAGCTTCAGCGAGCTAGGCAGCAG                         GGGATTTTCATATCAAGCTCGGGTGATCAAGCACATACATTGAGTGGAAAT
genomic: GTTTGAAGCTGACCCAACTAGAGCAAGAGCTTCAGCGAGCTAGGCAGCAGgtgaggttta ... atctctgtagGGGATTTTCATATCAAGCTCGGGTGATCAAGCACATACATTGAGTGGAAAT
EST: gi|193422285|gb|FK391494.1|FK391494
EST:     AAGCTGACCCAACTAGAGCAAGAGCTTCAGCGAGCTAGGCAGCAG                         GGGATTTTCATATCAAGCTCGGGTGATCAAGCACATACATTGAGTGGAAAT
genomic: AAGCTGACCCAACTAGAGCAAGAGCTTCAGCGAGCTAGGCAGCAGgtgaggttta ... atctctgtagGGGATTTTCATATCAAGCTCGGGTGATCAAGCACATACATTGAGTGGAAAT
EST: gi|192312701|gb|FK004389.1|FK004389
EST:     GTTTGAAGCTGACC-AACTAGAGCAAGAGCTTCAGCGAGCTAG-CAGCAG                         GG-ATTT-CATATCAAGCTCGGGTGATCA-GCACATACATTGAGTG-AA-T
genomic: GTTTGAAGCTGACCCAACTAGAGCAAGAGCTTCAGCGAGCTAGGCAGCAGgtgaggttta ... atctctgtagGGGATTTTCATATCAAGCTCGGGTGATCAAGCACATACATTGAGTGGAAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

accttggcaatcatgttcaattttaaaccgatatctcttgtttctatctctgtagGGGATTTTCATATCAAGCTCGGGTGATCAAGCACATACATTGAGTGGAAATG
                                 tctcttgtttctatct  CT-rich tract
            atgttcaattttaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaggtttagttaatccttgcaattaaattgtgttcaattgtctgctttgcttgttgtatgacacattaccttggcaatcatgttcaattttaaaccgatatctcttgtttctatctctgtagGGGATTTTCATATCAAGCTCGGGTGATCAAGCACATACATTGAGTGGAAATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA