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

TGACCTCCTTTCTGGATTCATCCTCTGGTTCACTGCATTTTCCATGCAAACACCAAACCCATATCAGTACCCTATAGGAAAGAAACGGATGCAACCATTGgtcagttctcctaatttaatattctgtttgaaactatctgaatcatcatcttctgttcttgcctagtaatatgatttcagtgactcttaggagttactta...

Basic information

species Glycine max
transcript GLYMA02G10580.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G10580.1 (Glycine max), 5'ss of exon 3
lower sequence: AT2G39450.1 (Arabidopsis thaliana), 5'ss of exon 3
TGACCTCCTTTCTGGATTCATCCTCTGGTTCACTGCATTTTCCATGCAAACACCAAACCCATATCAGTACCCTATAGGAAAGAAACGGATGCAACCATTGgtcagttctcctaatttaatattctgtttgaaactatctgaatcatcatcttctgttcttgcctagtaatatgat-ttcagtgactcttaggag--ttactta--------------------------------------------------------------------------------------------------
||| || |||||||| |||||||||||||| || || || |||||||| ||||| ||||| |||||||| || || || |||||||| ||||||||| ||||  ||  || |  ||| | |  ||  |  | |  |||||  |     |  | | ||  |      |  |||| | || | |    || || |   ||  ||                                                                                                   
TGATCTTCTTTCTGGCTTCATCCTCTGGTTTACCGCCTTCTCCATGCAGACACCCAACCCGTATCAGTATCCCATTGGCAAGAAACGCATGCAACCACTGgtttgta-tcatccttttaaagactaatgcacatgatctgtcttccattagtatatttctattatatgttatgttattgaatcggcctaagcaagcttgttttctgctattgatatctctgtgcaactattaacaccttcgacaagtcaataaagtttttccgatttctcaatatgtgatttttggttcaaatcctttcag

upper sequence: GLYMA02G10580.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv13s0019g00020.t01 (Vitis vinifera), 5'ss of exon 3
TGACCTCCTTTCTGGATTCATCCTCTGGTTCACTGCATTTTCCATGCAAACACCAAACCCATATCAGTACCCTATAGGAAAGAAACGGATGCAACCATTGgtcagttctcctaatttaatattctgtttgaaactatctgaatcatcatcttctgttcttgcctagtaatatgatttca---gtgactcttaggagttactta-
||| || |||||||| ||||| || ||||| ||||||||||||||||||||||| ||||||||||||||||| || ||||||||||| ||||| ||||||||||||  | ||     | |||||   ||  |   ||| ||  |||     |   ||| |    |   || |  ||  |   |  |||        | ||||| 
TGATCTTCTTTCTGGCTTCATTCTGTGGTTTACTGCATTTTCCATGCAAACACCGAACCCATATCAGTACCCCATTGGAAAGAAACGTATGCAGCCATTGgtcagtaattctg--caattattca--ttatagtgatcagatgcatatatctaaattcatataaacctatgtagttctacatgcaacttgacaagttcacttaa

upper sequence: GLYMA02G10580.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S11_299V6.2 (Physcomitrella patens), 5'ss of exon 4
TGACCTCCTTTCTGGATTCATCCTCTGGTTCACTGCATTTTCCATGCAAACACCAAACCCATATCAGTACCCTATAGGAAAGAAACGGATGCAACCATTGgtcagttctcc-taatttaatattctgtttgaaactatctgaatcatcatcttctgttcttgcctagtaatatgatttcagtgactctta---ggagttactta--
 ||||| |||||||| ||||| ||||||||||||||| |||| ||||  |  |  ||||| ||||  || || || || ||||| |||||||| ||  ||||  || | |     | |  | |  ||| |  |||| |||||||     |     |       || | | | | ||  ||| ||  | |    |||||| |  |  
AGACCTACTTTCTGGTTTCATTCTCTGGTTCACTGCAATTTCTATGCGCAAGCAGAACCCCTATCTCTATCCAATTGGCAAGAAGCGGATGCAGCCTCTGgtacgtccactacggtcttttctcatgtct--aact-tctgaatgcctgtgaggaga---gagctggaattttcataccagggaaacctgtatggagtttcagatc

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|209711680|gb|BW674043.1|BW674043
EST:     ACCAAACCCATATCAGTACCCTATAGGAAAGAAACGGATGNCA-CCATTG                         GGAATTCTTGTTTTTG
genomic: ACCAAACCCATATCAGTACCCTATAGGAAAGAAACGGATG-CAACCATTGgtcagttctc ... tttggtacagGGAATTCTTGTTTTTG
EST: gi|192327381|gb|FK017798.1|FK017798
EST:     CACCAAACCCATATCAGTACCCTATAGGAAAGAAACGGATGCAACCATTG                         GGAATTCTTGTTTTTGCCTCTGTTATGGCGACACTTGGACTGCAGATAATC
genomic: CACCAAACCCATATCAGTACCCTATAGGAAAGAAACGGATGCAACCATTGgtcagttctc ... tttggtacagGGAATTCTTGTTTTTGCCTCTGTTATGGCGACACTTGGACTGCAGATAATC
EST: gi|209706831|gb|BW683196.1|BW683196
EST:     CACCAAACCCATATCAGTACCCTATAGGAAAGAAACGGATGCAACCATTG                         GGAATTCTTGTTTTTGCCT
genomic: CACCAAACCCATATCAGTACCCTATAGGAAAGAAACGGATGCAACCATTGgtcagttctc ... tttggtacagGGAATTCTTGTTTTTGCCT
EST: gi|16349327|gb|BI974922.1|BI974922
EST:     CACCAAACCCATATCAGTACCCTATAGGAAAGAAACGGATGCAACCATTG                         GGAATTCTTGTTTTTGCCTCTGTTATGGCGACACTTGGACTGCAGATAATC
genomic: CACCAAACCCATATCAGTACCCTATAGGAAAGAAACGGATGCAACCATTGgtcagttctc ... tttggtacagGGAATTCTTGTTTTTGCCTCTGTTATGGCGACACTTGGACTGCAGATAATC
EST: gi|23059354|gb|BU578370.1|BU578370
EST:     CACCAAACCCATATCAGTACCCTATAGGAAAGAAACGGATGCAACCATTG                         GGAATTCTTGTTTTTGCCTCTGTTATGGCGACACTTGGACTGCAGATAATC
genomic: CACCAAACCCATATCAGTACCCTATAGGAAAGAAACGGATGCAACCATTGgtcagttctc ... tttggtacagGGAATTCTTGTTTTTGCCTCTGTTATGGCGACACTTGGACTGCAGATAATC
EST: gi|120532846|gb|EH260979.1|EH260979
EST:     CACCAAACCCATATCAGTACCCTATAGGAAAGAAACGGATGCAACCATTG                         GGAATTCTTGTTTCTGCCTCTGTTATGGCGACACTTGGACTGCAGATAATC
genomic: CACCAAACCCATATCAGTACCCTATAGGAAAGAAACGGATGCAACCATTGgtcagttctc ... tttggtacagGGAATTCTTGTTTTTGCCTCTGTTATGGCGACACTTGGACTGCAGATAATC
EST: gi|192302471|gb|FG994807.1|FG994807
EST:     CACCAAACCCATATCAGTACCCTATAGGAAAGAAACGGATGCAACCATTG                         GGAATTCTTGTTTTTGCCTCTGTTATGGCGACACTTGGACTGCAGATAATC
genomic: CACCAAACCCATATCAGTACCCTATAGGAAAGAAACGGATGCAACCATTGgtcagttctc ... tttggtacagGGAATTCTTGTTTTTGCCTCTGTTATGGCGACACTTGGACTGCAGATAATC
EST: gi|151396916|gb|EV266789.1|EV266789
EST:     CACCAAACCCATATCAGTACCCTATAGGAAAGAAACGGATGCAACCATTG                         GGAATTCTTGTTTTTGCCTCTGTTATGGCGACACTTGGACTGCAGATAATC
genomic: CACCAAACCCATATCAGTACCCTATAGGAAAGAAACGGATGCAACCATTGgtcagttctc ... tttggtacagGGAATTCTTGTTTTTGCCTCTGTTATGGCGACACTTGGACTGCAGATAATC
EST: gi|19453578|gb|BM954988.1|BM954988
EST:     CACCAAACCCATATCAGTACCCTATAGGAAAGAAACGGATGCAACCATTG                         GGAATTCTTGTTTTTGCCTCTGTTATGGCGACACTTGGACTGCAGATAATC
genomic: CACCAAACCCATATCAGTACCCTATAGGAAAGAAACGGATGCAACCATTGgtcagttctc ... tttggtacagGGAATTCTTGTTTTTGCCTCTGTTATGGCGACACTTGGACTGCAGATAATC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGACCTCCTTTCTGGATTCATCCTCTGGTTCACTGCATTTTCCATGCAAACACCAAACCCATATCAGTACCCTATAGGAAAGAAACGGATGCAACCATTGgtcagttctcctaatttaatattctgtttgaaactatctgaatcatcatcttctgttcttgcctagtaatatgatttcagtgactcttaggagttactta

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA