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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAAGGGCTAGAAGAGGTGAGGGACCAACTCTAGTGGAATGCGAGACCTATAGATTTAGAGGGCATTCATTGGCTGATCCCGATGAGCTTCGTGACCCTGgtgagaattctatttagataatatcttctctccctatgttcttaattttgaagtacatgtgctgatgttcctttgcatttctggtggtattcatcttcag...

Basic information

species Glycine max
transcript GLYMA16G02090.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G02090.1 (Glycine max), 5'ss of exon 2
lower sequence: AT1G01090.1 (Arabidopsis thaliana), 5'ss of exon 2
GGAAGGGCTAGAAGAGGTGAGGGACCAACTCTAGTGGAATGCGAGACCTATAGATTTAGAGGGCATTCATTGGCTGATCCCGATGAGCTTCGTGACCCTGgtgagaattctatttagataatatcttctctccctatgttcttaattttgaagtacatgtgctgatgttcctttgcatttctggtggtattcatcttcag
|| ||||||||||| || || ||||| | || ||||| ||||| |||||||| ||||| || || |||||||||||||||||||| ||||| ||||| | || | | || | | | | | | | | | || | || || | ||| || |||| | || | | |||
ACTAGAGCTAGAAGAGGAGAAGGTCCAACCTTGGTTGAATGTGAGACTTATAGATTCAGAGGACACTCCTTGGCTGATCCCGATGAGCTCCGTGATGCTGgtaaatat-cgacttccttctgcttcttgatgcttgtactgattatctaagggt---tgaaacaaccttctctttaatttg----aatttttttttgcag

upper sequence: GLYMA16G02090.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv15s0048g02580.t01 (Vitis vinifera), 5'ss of exon 2
GGAAGGGCTAGAAGAGGTGAGGGACCAACTCTAGTGGAATGCGAGACCTATAGATTTAGAGGGCATTCATTGGCTGATCCCGATGAGCTTCGTGACCCTGgtgagaattctatttagataatatcttctctccctatgttcttaattttgaagtacatgtgctgatgttcctttgcatttctggtggtattcatcttcag
||||||||| ||||| || ||||||||||| |||||||| ||||| ||||| |||||||| || || ||||||||||| |||||||| |||||||||||| || | | | || | | || || | | || | | | | | | | |||| | |||| || |
CAAAGGGCTAGGAGAGGAGAAGGACCAACTCTGGTGGAATGTGAGACATATAGGTTTAGAGGACACTCTTTGGCTGATCCTGATGAGCTCCGTGACCCTGgtaagcagttagaattaattgtcttgccttgtttcgaattatccagttgtgatcttagtttccattaattttgatgatttttctgcctattgatttgtga
















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|192307546|gb|FK002050.1|FK002050
EST:     TAGATTTAGAGGGCATTCATTGGCTGATCCCGATGAGCTTCGTGACCCTG                         CTGAGAAGGAACACTATGCCGGTAGGGACCCCATCACTGCATTGAAGAAAT
genomic: TAGATTTAGAGGGCATTCATTGGCTGATCCCGATGAGCTTCGTGACCCTGgtgagaattc ... gctttggcagCTGAGAAGGAACACTATGCCGGTAGGGACCCCATCACTGCATTGAAGAAAT
EST: gi|31461521|gb|CD403549.1|CD403549
EST:     TAGATTTAGAGGTCATTCATTGGCTGATCCTGATGAGCTTCGTGACCCTG                         CTGAGAAGGAACACTATGCCGTTAGGGACCCCATCACTGCATTGAAGAAAT
genomic: TAGATTTAGAGGGCATTCATTGGCTGATCCCGATGAGCTTCGTGACCCTGgtgagaattc ... gctttggcagCTGAGAAGGAACACTATGCCGGTAGGGACCCCATCACTGCATTGAAGAAAT
EST: gi|214009116|gb|DB989874.1|DB989874
EST:     TAGATTTAGAGGGCATTCATTGGCTGATCCTGATGAGCTTCGTGACCCTG                         CTGAGAAGGAACACTATGCCGGTAGGGACCCCATCACTGCATTGAAGAAAT
genomic: TAGATTTAGAGGGCATTCATTGGCTGATCCCGATGAGCTTCGTGACCCTGgtgagaattc ... gctttggcagCTGAGAAGGAACACTATGCCGGTAGGGACCCCATCACTGCATTGAAGAAAT
EST: gi|193351651|gb|FK317157.1|FK317157
EST:     TAGATTTAGAGGGCATTCATTGGCTGATCCCGATGAGCTTCGTGACCCTG                         CTGAGAAGGAACACTATGCCGGTAGGGACCCCATCACTGCATTGAAGAAAT
genomic: TAGATTTAGAGGGCATTCATTGGCTGATCCCGATGAGCTTCGTGACCCTGgtgagaattc ... gctttggcagCTGAGAAGGAACACTATGCCGGTAGGGACCCCATCACTGCATTGAAGAAAT
EST: gi|58016175|gb|CX702917.1|CX702917
EST:     TAGATTTAGAGGGCATTCATTGGCTGATCCCGATGAGCTTCGTGACCCTG                         CTGAGAAGGAACACTATGCCGGTAGGGACCCCATCACTGCATTGAAGAAAT
genomic: TAGATTTAGAGGGCATTCATTGGCTGATCCCGATGAGCTTCGTGACCCTGgtgagaattc ... gctttggcagCTGAGAAGGAACACTATGCCGGTAGGGACCCCATCACTGCATTGAAGAAAT
EST: gi|58015882|gb|CX702624.1|CX702624
EST:     TAGATTTAGAGGGCATTCATTGGCTGATCCCGATGAGCTTCGTGACCCTG                         CTGAGAAGGAACACTATGCCGGTAGGGACCCCATCACTGCATTGAAGAAAT
genomic: TAGATTTAGAGGGCATTCATTGGCTGATCCCGATGAGCTTCGTGACCCTGgtgagaattc ... gctttggcagCTGAGAAGGAACACTATGCCGGTAGGGACCCCATCACTGCATTGAAGAAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGAAGGGCTAGAAGAGGTGAGGGACCAACTCTAGTGGAATGCGAGACCTATAGATTTAGAGGGCATTCATTGGCTGATCCCGATGAGCTTCGTGACCCTGgtgagaattctatttagataatatcttctctccctatgttcttaattttgaagtacatgtgctgatgttcctttgcatttctggtggtattcatcttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctccc