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

TGCAATTAGATTTGTCTTGGCGGGTGCGAACATAATGTGTCCCGGTCTTACATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTGgtactgtcattatattcttcttaaatgattataatgcacaaattttctagtgactttatattaactttcatctcatcatgtatttatctgatttcag

Basic information

species Glycine max
transcript GLYMA06G13720.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G13720.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv14s0060g01920.t01 (Vitis vinifera), 5'ss of exon 5
TGCAATTAGATTTGTCTTGGCGGGTGCGAACATAATGTGTCCCGGTCTTACATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTGgtactgtcattatatt--cttcttaaatgattataatgcac---aaattttctagtgactttatattaactttcatctcatcatgtatttatctgatttcag
||||||||  |||||| | || || || || ||||||||||| || || ||||||||||| ||||||||||| || ||||| |  | |||| | || |||||||    | | ||||  | || | ||| || ||  ||  |    | | ||   |     | |  |  |  |  ||   ||    | | |    ||| ||||
TGCAATTAAGTTTGTCCTTGCTGGAGCAAATATAATGTGTCCTGGCCTCACATCTCCTGGTGGTGTTTTGGACGATGATGTGGCTGAAGAAAGTCCAGTGgtacgaatactctattatcctccttaat-atcatgctgtgcttggagtatttgtgcattgtcaactgtatctgtatgctatagcttgtct-cgggatgtcag
















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|6848993|gb|AW351283.1|AW351283
EST:     CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTG                         GCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
genomic: CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTGgtactgtcat ... ctgatttcagGCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
EST: gi|193362779|gb|FK327871.1|FK327871
EST:     CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTG                         GCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
genomic: CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTGgtactgtcat ... ctgatttcagGCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
EST: gi|298187707|gb|HO031664.1|HO031664
EST:     CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTG                         GCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCGATTGGCTTTACAAAA
genomic: CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTGgtactgtcat ... ctgatttcagGCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
EST: gi|37997132|gb|CF808721.1|CF808721
EST:     CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTG                         GCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
genomic: CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTGgtactgtcat ... ctgatttcagGCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
EST: gi|37993894|gb|CF805640.1|CF805640
EST:     CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTG                         GCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
genomic: CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTGgtactgtcat ... ctgatttcagGCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
EST: gi|209712615|gb|BW653748.1|BW653748
EST:     CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTG                         GCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
genomic: CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTGgtactgtcat ... ctgatttcagGCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
EST: gi|298164604|gb|HO014249.1|HO014249
EST:     CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTG                         GCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
genomic: CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTGgtactgtcat ... ctgatttcagGCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
EST: gi|298192440|gb|HO036522.1|HO036522
EST:     CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTG                         GCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
genomic: CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTGgtactgtcat ... ctgatttcagGCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
EST: gi|151394068|gb|EV263939.1|EV263939
EST:     CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTG                         GCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
genomic: CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTGgtactgtcat ... ctgatttcagGCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
EST: gi|193448013|gb|FK411016.1|FK411016
EST:     CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTG                         GCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
genomic: CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTGgtactgtcat ... ctgatttcagGCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
EST: gi|298169962|gb|HO018586.1|HO018586
EST:     CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTG                         GCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
genomic: CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTGgtactgtcat ... ctgatttcagGCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
EST: gi|209712614|gb|BW653747.1|BW653747
EST:     CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTG                         GCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
genomic: CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTGgtactgtcat ... ctgatttcagGCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
EST: gi|193346957|gb|FK311366.1|FK311366
EST:     TGTAGGGGCAGAATTGCCCTGTG                         GCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAA
genomic: TGTAGGGGCAGAA-TGCCCTGTGgtactgtcat ... ctgatttcagGCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAA
EST: gi|193597105|gb|FK554433.1|FK554433
EST:     CGTCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTG                         GCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
genomic: CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTGgtactgtcat ... ctgatttcagGCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
EST: gi|254323561|gb|GR836007.1|GR836007
EST:     CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTG                         GCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
genomic: CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTGgtactgtcat ... ctgatttcagGCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
EST: gi|151412868|gb|EV282680.1|EV282680
EST:     CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTG                         GCCATCATGGCTGAAGGTAAACAACATGCTCTTGCTATTGGCTTTACAAAA
genomic: CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTGgtactgtcat ... ctgatttcagGCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
EST: gi|192300163|gb|FG989285.1|FG989285
EST:     CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTG                         GCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
genomic: CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTGgtactgtcat ... ctgatttcagGCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
EST: gi|254323562|gb|GR836008.1|GR836008
EST:     CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTG                         GCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
genomic: CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTGgtactgtcat ... ctgatttcagGCCATCATGGCTGAAGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAAA
EST: gi|193593811|gb|FK548405.1|FK548405
EST:     CGTCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTG                         GCCATCATGGCTGAAGGGTAAACAGCATGCTCTTGCTATTGGCTTTACAAA
genomic: CATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTGgtactgtcat ... ctgatttcagGCCATCATGGCTGAAGG-TAAACAGCATGCTCTTGCTATTGGCTTTACAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCAATTAGATTTGTCTTGGCGGGTGCGAACATAATGTGTCCCGGTCTTACATCTCCTGGGGGTGTTTTGGATGAGGATGTAGGGGCAGAATGCCCTGTGgtactgtcattatattcttcttaaatgattataatgcacaaattttctagtgactttatattaactttcatctcatcatgtatttatctgatttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG