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

GTGCTACTGTTAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCATgtaagtattaatgcactgatctttagattgctataaatgtctagcatgtcatattgtcatgctgtataagcaccataagagttcattttggtaaagtgcc...

Basic information

species Glycine max
transcript GLYMA16G29740.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G29740.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os02g45670.1 (Oryza sativa), 5'ss of exon 7
GTGCTACTGTTAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCATgtaagtattaatgca-ctgatctttagattgctataaatgtctagcatgtcatattgtcatgctgtataagcaccataagagttcattttggtaaagtgcc
|   |  ||||||||||||| || ||||||||||| ||||| || |||||||| ||||| ||| | |    | || |    || |||| | |  |     | |    || |||    || | |   | ||  |  |      ||    || | |   ||| 
GCATTGTTGTTAATGAGAAATCTCTCCATCAATTTGACTAGTCCTGATTTTGAAGATCAGgtacgcagctctccagcatgcctctagaattcagtttggctgtgtactgccattacttccttcaaaagaaagaaaaatgcctttagaatttggatcatgc-

upper sequence: GLYMA16G29740.1 (Glycine max), 5'ss of exon 7
lower sequence: AT5G52660.2 (Arabidopsis thaliana), 5'ss of exon 7
GTGCTACTGTTAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCATgtaagtattaatgcactgatctttagattgctataaatgtctagcatgtcatattgtcatgctgtataagcaccataagagttcattttggt----aaagtgcc--
||| |||| || |||||||| || |||||||| ||  |||| || || |||||||||||||||||||||       |  ||   | | | |||   |  | || |   ||  |     || |   | ||  | | | |    || | ||| |    |||       
GTGTTACTATTGATGAGAAATCTATCCATCAACTTGTCTAGTCCTGACTTTGAGGATCATgtaagtatt------ttactccacaaactactagtcaattttaac---tcgaaaccctatacc--agaactaacctcaagactcttattgatttcaaaaacaatag

upper sequence: GLYMA16G29740.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv16s0050g01180.t01 (Vitis vinifera), 5'ss of exon 7
GTGCTACTGTTAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCATgtaagtattaatg-cac-tgatctttagattg----ctataaatgtctagcatgtcatattgtcatgctgtata-agcaccataagagttcattttggtaaagtgcc
||| | ||||| ||||||||||| ||||||||||| || ||||| |||||||||||||||||||||   | |  ||| || |  ||  |||      | |  |||  ||     ||||  | |  ||    ||  ||||||  |   ||  | ||   ||       
GTGTTGCTGTTGATGAGAAACCTCTCCATCAATTTGACCAGCCCTGATTTTGAGGATCATgtaagtgccattttcacatggttcttgtattcaagtttcttgatgcttaattattcatcatattgtgaaagatgcagcacctcactggtaaaattgcata-------

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|19053052|gb|BM731719.1|BM731719
EST:     TAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCAT                         AGAAAGCTGCTTTCATCATATGAAGTTGAACCAGAGAGAGATGATAACTAT
genomic: TAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCATgtaagtatta ... atttatgcagAGAAAGCTGCTTTCATCATATGAAGTTGAACCAGAGAGAGATGATAACTAT
EST: gi|58016997|gb|CX703739.1|CX703739
EST:     TAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCAT                         AGAAAGCTGCTTTCATCATATGAAGTTGAACCAGAGAGAGATGATAACTAT
genomic: TAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCATgtaagtatta ... atttatgcagAGAAAGCTGCTTTCATCATATGAAGTTGAACCAGAGAGAGATGATAACTAT
EST: gi|21479821|gb|BQ576504.1|BQ576504
EST:     TAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCAT                         AGAAAGCTGCTTTCATCATATGAAGTTGAACCAGAGAGAGATGATAACTAT
genomic: TAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCATgtaagtatta ... atttatgcagAGAAAGCTGCTTTCATCATATGAAGTTGAACCAGAGAGAGATGATAACTAT
EST: gi|26049069|gb|CA785522.1|CA785522
EST:     TAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCAT                         AGAAAGCTGCTTTCATCATATGAAGTTGAACCAGAGAGAGATGATAACTAT
genomic: TAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCATgtaagtatta ... atttatgcagAGAAAGCTGCTTTCATCATATGAAGTTGAACCAGAGAGAGATGATAACTAT
EST: gi|58016753|gb|CX703495.1|CX703495
EST:     TAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCAT                         AGAAAGCTGCTTTCATCATATGAAGTTGAACCAGAGAGAGATGATAACTAT
genomic: TAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCATgtaagtatta ... atttatgcagAGAAAGCTGCTTTCATCATATGAAGTTGAACCAGAGAGAGATGATAACTAT
EST: gi|120528797|gb|EH256931.1|EH256931
EST:     TAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCAT                         AGAAAGCTGCCTTCATCATATGAAGTTGAACCAGAGAGAGATGATAACTAT
genomic: TAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCATgtaagtatta ... atttatgcagAGAAAGCTGCTTTCATCATATGAAGTTGAACCAGAGAGAGATGATAACTAT
EST: gi|14205806|gb|BG839484.1|BG839484
EST:     TAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCAT                         AGAAAGCTGCTTTCATCATATGAAGTTGAACCAGAGAGAGATGATAACTAT
genomic: TAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCATgtaagtatta ... atttatgcagAGAAAGCTGCTTTCATCATATGAAGTTGAACCAGAGAGAGATGATAACTAT
EST: gi|214007712|gb|DB986078.1|DB986078
EST:     TAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCAT                         AGAAAGCTGCTTTCATCATATGAAGTTGAACCAGAGAGAGATGATAACTAT
genomic: TAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCATgtaagtatta ... atttatgcagAGAAAGCTGCTTTCATCATATGAAGTTGAACCAGAGAGAGATGATAACTAT
EST: gi|15661894|gb|BI699265.1|BI699265
EST:     GAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCAT                         AGAAAGCTGCTTTCATCATATGAAGTTGAACCAGAGAGAGATGATAACTAT
genomic: GAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCATgtaagtatta ... atttatgcagAGAAAGCTGCTTTCATCATATGAAGTTGAACCAGAGAGAGATGATAACTAT
EST: gi|120531655|gb|EH259788.1|EH259788
EST:     TAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCAT                         AGAAAGCTGCCTTCATCATATGAAGTTGAACCAGAGAGAGATGATAACTAT
genomic: TAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCATgtaagtatta ... atttatgcagAGAAAGCTGCTTTCATCATATGAAGTTGAACCAGAGAGAGATGATAACTAT
EST: gi|6666602|gb|AW278061.1|AW278061
EST:     TAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCAT                         AGAAAGCTGCTTTCATCATATGAAGTTGAACCAGAGAGAGATGATAACTAT
genomic: TAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCATgtaagtatta ... atttatgcagAGAAAGCTGCTTTCATCATATGAAGTTGAACCAGAGAGAGATGATAACTAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGCTACTGTTAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCATgtaagtattaatgcactgatctttagattgctataaatgtctagcatgtcatattgtcatgctgtataagcaccataagagttcattttggtaaagtgcc

- - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT