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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCGTTAAGAAGCCAACGGTTCGGGCCAAAGTTCCTTTTGAGAAAGGCTACAGTCAAATGGACTGGCTCAAGCTCACCCAAACACATCCTGACCTTGCAGgttctcatactcaatttttttactatgcaatttcaatcattatctttgttggttcatttttcaaaatttcttccaatttcttagagctttgtaagagaaa...

Basic information

species Glycine max
transcript GLYMA12G01150.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G01150.2 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os07g12830.1 (Oryza sativa), 5'ss of exon 3
TCCGTTAAGAAGCCAACGGTTCGGGCCAAAGTTCCTTTTGAGAAAGGCTACAGTCAAATGGACTGGCTCAAGCTCACCCAAACACATCCTGACCTTGCAGgt---tctca--tact-caattttttta-ctatgcaatttcaatcattatc--tttgttggttcatttttcaaaatttcttccaatttcttagagctttgtaagagaaa
||    ||||| ||  | |  || || ||||||||||| ||||| ||||| || |||||||| ||||| ||||| ||||  ||||||||||| |||||||||   |   |  | || |  ||| || | || || |  |   || ||||     | | | ||  |  ||| |||| ||  |        |||  |  |||| |      
TCTTCAAAGAAACCTGCAGCGCGTGCAAAAGTTCCTTTCGAGAAGGGCTATAGCCAAATGGATTGGCTTAAGCTGACCCGTACACATCCTGATCTTGCAGgtaaattgtagctgctactgtttcttcatctctgtatgtatgattattactggatggctagtgtacatttgaaaactttcttag-----ttaatgtattgttact----

upper sequence: GLYMA12G01150.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G152438_T05 (Zea mays), 5'ss of exon 3
TCCGTTAAGAAGCCAACGGTTCGGGCCAAAGTTCCTTTTGAGAAAGGCTACAGTCAAATGGACTGGCTCAAGCTCACCCAAACACATCCTGACCTTGC----AGgttctcatactcaatttttttactatgcaatttcaatcattatct-ttgttggttcatttttcaaaatttcttccaatttcttagagctttgtaagagaaa
||    ||||| ||  | |  ||||| || |||||||||||||||||||| ||||||||||| ||||| || || || |||||||||||||| || ||    | ||| | ||  | |     ||||||    |  |   |  |  |  |  |||| | | || |||   | |||  || |  | | ||     ||          
TCATCCAAGAAACCCGCAGCACGGGCAAAGGTTCCTTTTGAGAAAGGCTATAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTGgtaagttgttattgttacagactttactggtaagctgacacgaacacatactgtttgctgatctttggtactttgatctatctgcataattaattcctct-----

upper sequence: GLYMA12G01150.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G152438_T02 (Zea mays), 5'ss of exon 3
TCCGTTAAGAAGCCAACGGTTCGGGCCAAAGTTCCTTTTGAGAAAGGCTACAGTCAAATGGACTGGCTCAAGCTCACCCAAACACATCCTGACCTTGC----AGgttctcatactcaatttttttactatgcaatttcaatcattatct-ttgttggttcatttttcaaaatttcttccaatttc----ttagagctttgtaagagaaa------------------------------------------
||    ||||| ||  | |  ||||| || |||||||||||||||||||| ||||||||||| ||||| || || || |||||||||||||| || ||    | ||| | ||  | |     ||||||    |  |   |  |  |  |  |||| | | || |||   | |||  || |  | |    |||   | |  ||  |||                                            
TCATCCAAGAAACCCGCAGCACGGGCAAAGGTTCCTTTTGAGAAAGGCTATAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTGgtaagttgttattgttacagactttactggtaagctgacacgaacacatactgtttgctgatctttggtactttgatctatctgcataattaattcctcttagcagacctattgtgggatctgagaatgacagtggtgttaaatcttgtag

upper sequence: GLYMA12G01150.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv13s0064g00450.t01 (Vitis vinifera), 5'ss of exon 3
TCCGTTAAGAAGCCAACGGTTCGGGCCAAAGTTCCTTTTGAGAAAGGCTACAGTCAAATGGACTGGCTCAAGCTCACCCAAACACATCCTGACCTTGCAGgttc-----tcatactcaatttttttactat-gcaatttcaatcattatctttgttggttcatttttcaaaatttcttccaatttcttagagctttgtaagagaaa
 |    | ||||||    | ||||||||| |||||||||||||| || || ||||||||||| ||||| ||||| || |||||||||||||| |||||||||       | | |  |  || | ||| |||    ||||    ||  ||     |  ||  ||||||   ||| | |     | | ||||  |||  |  |     
GCTACAAGGAAGCCTGTAGCTCGGGCCAAGGTTCCTTTTGAGAAGGGTTATAGTCAAATGGATTGGCTAAAGCTTACTCAAACACATCCTGATCTTGCAGgtatagagttgagaggctcttgtattattattattattttggacaaaatacc--tcagtatatttttgttaatgtatggtgttcttttagtacttcttgtgg----

upper sequence: GLYMA12G01150.2 (Glycine max), 5'ss of exon 3
lower sequence: EFJ11012 (Selaginella moellendorffii), 5'ss of exon 1
TCCGTTAAGAAGCCAACGGTTCGGGCCAAAGTTCCTTTTGAGAAAGGCTACAGTCAAATGGACTGGCTCAAGCTCACCCAAACACATCCTGACCTTGCAGgttc-tcatactcaatttttttactatgcaatttcaatcattatctttgttggttcatttttcaaaatttcttccaatttcttagagctttgtaagagaaa
    |   |  ||||| |    |   ||| ||||| ||||||||||| | ||| || ||||||||||||||||||||||| |  ||||| || || |||||||   | | |||||    | | ||      | |  | || ||  | | |  |                                                
---ATGCCGCCGCCAAAGCAGAGAAACAAGGTTCCGTTTGAGAAAGGTTTCAGCCAGATGGACTGGCTCAAGCTCACCCAGAGCCATCCAGATCTAGCAGgttggccgtgctcaagcgctctccttcatg-tctataccactacttctttgcgcag---------------------------------------------

upper sequence: GLYMA12G01150.2 (Glycine max), 5'ss of exon 3
lower sequence: EFJ04902 (Selaginella moellendorffii), 5'ss of exon 1
TCCGTTAAGAAGCCAACGGTTCGGGCCAAAGTTCCTTTTGAGAAAGGCTACAGTCAAATGGACTGGCTCAAGCTCACCCAAACACATCCTGACCTTGCAGgttc-tcatactcaatttttttactatgcaatttcaatcattatctttgttggttcatttttcaaaatttcttccaatttcttagagctttgtaagagaaa
    |   |  ||||| |    |   ||| ||||| ||||||||||||| ||| || ||||||||||||||||||||||| |  ||||| || || |||||||   | | |||||    | | ||      | |  | || ||  | | |  |                                                
---ATGCCGCCGCCAAAGCAGAGAAACAAGGTTCCGTTTGAGAAAGGCTTCAGCCAGATGGACTGGCTCAAGCTCACCCAGAGCCATCCAGATCTAGCAGgttggccgtgctcaagcgctctccttcatg-tctataccactacttctttgcgcag---------------------------------------------

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|208222915|gb|GE021696.1|GE021696
EST:     CAGTCAAATGGACTGGCTCAAGCTCACCCAAACACATCCTGACCTTGCAG                         GTCTGAAAGGGCAGTCAAACAAGAGACTTATTTCTATGGATGAAGTTAGAA
genomic: CAGTCAAATGGACTGGCTCAAGCTCACCCAAACACATCCTGACCTTGCAGgttctcatac ... cttgttccagGTCTGAAAGGGCAGTCAAACAAGAGACTTATTTCTATGGATGAAGTTAGAA
EST: gi|22929655|gb|BU546794.1|BU546794
EST:     CAGTCAAATGGACTGGCTCAAGCTCACCCAAACACATCCTGACCTTGCAG                         GTCTGAAAGGGCAGTCAAACAAGAGACTTATTTCTATGGATGAAGTTAGAA
genomic: CAGTCAAATGGACTGGCTCAAGCTCACCCAAACACATCCTGACCTTGCAGgttctcatac ... cttgttccagGTCTGAAAGGGCAGTCAAACAAGAGACTTATTTCTATGGATGAAGTTAGAA
EST: gi|197661920|gb|FD480288.1|FD480288
EST:     CAGTCAAATGGACTGGCTCAAGCTCACCCAAACACATCCTGACCTTGCAG                         GTCTGAAAGGGCAGTCAAACAAGAGACTTATTTCTATGGATGAAGTTAGAA
genomic: CAGTCAAATGGACTGGCTCAAGCTCACCCAAACACATCCTGACCTTGCAGgttctcatac ... cttgttccagGTCTGAAAGGGCAGTCAAACAAGAGACTTATTTCTATGGATGAAGTTAGAA
EST: gi|18732508|gb|BM527083.1|BM527083
EST:     CAGTCAAATGGACTGGCTCAAGCTCACCCAAACACATCCTGACCTTGCAG                         GTCTGAAAGGGCAGTCAAACAAGAGACTTATTTCTATGGATGAAGTTAGAA
genomic: CAGTCAAATGGACTGGCTCAAGCTCACCCAAACACATCCTGACCTTGCAGgttctcatac ... cttgttccagGTCTGAAAGGGCAGTCAAACAAGAGACTTATTTCTATGGATGAAGTTAGAA
EST: gi|192317905|gb|FK010211.1|FK010211
EST:     CAGTCAAATGGACTGGCTCAAGCTCACCCAAACACATCCTGACCTTACAG                         GTCTGAAAGGGCAGTCAAACAAGAGACTTATTTCTATGGATGAAGTTAGAA
genomic: CAGTCAAATGGACTGGCTCAAGCTCACCCAAACACATCCTGACCTTGCAGgttctcatac ... cttgttccagGTCTGAAAGGGCAGTCAAACAAGAGACTTATTTCTATGGATGAAGTTAGAA
EST: gi|13479751|gb|BG509094.1|BG509094
EST:     CAGTCAAATGGACTGGCTCAAGCTCACCCAAACACATCCTGACCTTGCAG                         GTCTGAAAGGGCAGTCAAACAAGAGACTTATTTCTATGGATGAAGTTAGAA
genomic: CAGTCAAATGGACTGGCTCAAGCTCACCCAAACACATCCTGACCTTGCAGgttctcatac ... cttgttccagGTCTGAAAGGGCAGTCAAACAAGAGACTTATTTCTATGGATGAAGTTAGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCCGTTAAGAAGCCAACGGTTCGGGCCAAAGTTCCTTTTGAGAAAGGCTACAGTCAAATGGACTGGCTCAAGCTCACCCAAACACATCCTGACCTTGCAGgttctcatactcaatttttttactatgcaatttcaatcattatctttgttggttcatttttcaaaatttcttccaatttcttagagctttgtaagagaaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA