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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTACAATAGATTAAGACCCTTAAGCTATCGTGGAGCAGATGTATTCCTGCTTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagcttgggttttttactttttttttttttttgtacctctctaatctggactaattttctcccatccttgtccag

Basic information

species Glycine max
transcript GLYMA12G03660.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G03660.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv03s0038g02380.t01 (Vitis vinifera), 5'ss of exon 4
TTACAATAGATTAAGACCCTTAAGCTATCGTGGAGCAGATGTATTCCTGCTTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagcttgggtttttt--------actttttttttttttttgtacctctctaatctg--gactaattttctcccatccttgtccag-----------------------------
||||||||| || ||||| || ||||| ||||| |||||||| || |||||||||||||| ||||| |||| ||||||||||||||||||||||||||||||||| |||| || |          | ||||||  ||||||    |  ||  ||  ||  | ||  ||        |   ||   |                              
TTACAATAGGTTGAGACCTTTGAGCTACCGTGGTGCAGATGTCTTTCTGCTTGCTTTCTCCCTCATTAGCAAGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagtttggcttctactatgagagatttttttccttttttctccctcctgcaacatgtcgtctggttaatatggtttgctgataaattctttatgtgctctgtttccatattcag
















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|298171505|gb|HO016537.1|HO016537
EST:     TCGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... ccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|58014286|gb|CX701028.1|CX701028
EST:     TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... ccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|58020948|gb|CX707690.1|CX707690
EST:     TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... ccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|151401174|gb|EV270988.1|EV270988
EST:     TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... ccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|151405308|gb|EV275122.1|EV275122
EST:     TTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... ccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|18039985|gb|BM308279.1|BM308279
EST:     TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... ccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|308222701|gb|HO760611.1|HO760611
EST:     TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... ccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|58021197|gb|CX707939.1|CX707939
EST:     TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... ccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|298170161|gb|HO018785.1|HO018785
EST:     TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... ccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|192329144|gb|FK021131.1|FK021131
EST:     TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... ccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|298172850|gb|HO019834.1|HO019834
EST:     TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... ccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTACAATAGATTAAGACCCTTAAGCTATCGTGGAGCAGATGTATTCCTGCTTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagcttgggttttttactttttttttttttttgtacctctctaatctggactaattttctcccatccttgtccag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA