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

gtaaatatttaccagattcttccccatcttctgtacagctagtaactgggctaattgtatgcatgctctgtaattctcagctggagtttgtatcataatcttaggaatctagtaaattcacttttggatgagtattaaaagtgaaattatagccttataagtgggactgattgtttctagaacatactgtttaacagAATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCCTCCCAGTTTAACATTGCTTTGGATGATGTGTCAATCACAAGTTTGACGTTTGGGAAGG

Basic information

species Glycine max
transcript GLYMA11G11670.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G11670.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os03g60000.1 (Oryza sativa), 3'ss of exon 3
gtaaatatttaccagattcttccccatcttctgtacagctagtaactgggctaattgtatgcatgctctgtaattctcagctggagtttgtatcataatcttaggaatctagtaaattcacttttggatgagtattaaaagtgaaattatagccttataagtgggactgattgtttctagaacatactgtttaacagAATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCCTCCCAGTTTAACATTGCTTTGGATGATGTGTCAATCACAAGTTTGACGTTTGGGAAGG
                                |||| |  |  |  |   |||  ||| |  |   | | ||||      |    || ||       |  ||| ||  ||| || | |    | |   | ||| |||| ||| ||  |||||    |||  ||  | | |||  | ||  | |  ||      ||||  ||| ||  | || || ||||||||  ||||  |||||||   | | || ||||||||| ||||||||||||| ||||||||| | |  ||||| || |
--------------------------------gtactgtcatcatat---ctatctgtgtttaaa-tatctaatatgtttccatggtatgctatgctagtttaagag-ctaatatagtaggatat---ttagt-ttaagagttaa--tatagtaggatatatgctaataattactcctttatccaac------acagGCTGTGAGCAGGGAGATTAGGAAGATCCTGACAGAGAGGGCTAGCAACTTCAACATTGCTCTGGATGATGTGTCCATCACAAGTCTCAGCTTTGGAAAAG

upper sequence: GLYMA11G11670.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os03g62490.1 (Oryza sativa), 3'ss of exon 3
gtaaatatttaccagattcttccccatcttctgtacagctagtaactgggctaattgtatgcatgctctgtaattctcagctggagtttgtatcataatcttaggaatctagtaaattcacttttggatgagtattaaaagtgaaattatagccttataagtgggactgattgtttctagaacatactgtttaacagAATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCCTCCCAGTTTAACATTGCTTTGGATGATGTGTCAATCACAAGTTTGACGTTTGGGAAGG
                                |||| |    || |    |||  ||| |  |   | | ||||      |    || ||       |  ||| ||  ||| || | |    |     | ||| |||| ||  ||  |||||    |||  ||| | | ||| || ||  | |  ||      ||||  ||| ||  | || || ||||||||  ||||  |||||||   | | || ||||||||| ||||||||||||| ||||||||| | |  ||||| || |
--------------------------------gtactgtct-tatcatatctatctgtgtttaaa-tatctaatatgtttccatggtatgctatgctagtttaagag-ctaatatagtagtatgatatttagt-ttaagagctaa--tatagtaggatatatggtaataattattcctttatccaac------acagGCTGTGAGCAGGGAGATTAGGAAGATCCTGACAGAGAGGGCTAGCAACTTCAACATTGCTCTGGATGATGTGTCCATCACAAGTCTCAGCTTTGGAAAAG

upper sequence: GLYMA11G11670.2 (Glycine max), 3'ss of exon 4
lower sequence: PP1S14_33V6.1 (Physcomitrella patens), 3'ss of exon 3
gtaaatatttaccagattcttccccatcttctgtacagctagtaactgggctaattgtatgcatgctctgtaattctcagctggagtttgtatcataatcttaggaatctagtaaattcacttttggatgagtattaaaagtgaaattatagccttataagtgggactgattgtttctagaacatactgtttaacagAATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCCTCCCAGTTTAACATTGCTTTGGATGATGTGTCAATCACAAGTTTGACGTTTGGGAAGG
                                                                                | | | |||   | ||| | || |       |||      |   | | |  || |       |  | || |  |  || |    || ||| || || |  ||       ||  ||||   || ||| |||| ||  |||  || |||    || | ||  |    |||||||||||||||||||| ||||||||||| |   | || || |||| ||
--------------------------------------------------------------------------------cagaaattttagttatagtttttg-----ctgtagcccggccagtagtttggtttc------gcgactacattcggatgac---gattgactgatt-tgtaatgggt--ttcgacagGTCGTCAGTAGAGAGATCCGGAGAATCTTGCAGGAGCGTGCTACGAGCTTTAACATTGCTTTGGATGACGTGTCAATCACCAACCTTACTTTCGGGAGGG

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|254330517|gb|GR841782.1|GR841782
EST:     AAGCTGTAGTTGCACAGTATAATGCCAGTCAGCTCATTACTCAGAGAGAG                         AATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCCTCCCAGTTT
genomic: AAGCTGTAGTTGCACAGTATAATGCCAGTCAGCTCATTACTCAGAGAGAGgtaaatattt ... tgtttaacagAATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCCTCCCAGTTT
EST: gi|192301953|gb|FG995571.1|FG995571
EST:     AAGCTGTAGTTGCACAGTATAATGCCAGTCAGCTCATTACTCAGAGAGAG                         AATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCCTCCCAGTTT
genomic: AAGCTGTAGTTGCACAGTATAATGCCAGTCAGCTCATTACTCAGAGAGAGgtaaatattt ... tgtttaacagAATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCCTCCCAGTTT
EST: gi|15287791|gb|BI471682.1|BI471682
EST:     AAGCTGTAGTTGCACAGTATAATGCCAGTCAGCTCATTACTCAGAGAGAG                         AATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCCTCCCAGTTT
genomic: AAGCTGTAGTTGCACAGTATAATGCCAGTCAGCTCATTACTCAGAGAGAGgtaaatattt ... tgtttaacagAATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCCTCCCAGTTT
EST: gi|17962874|gb|BM269622.1|BM269622
EST:     AAGCTGTAGTTGCACAGTATAATGCCAGTCAGCTCATTACTCAGAGAGAG                         AATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCCTCCCAGTTT
genomic: AAGCTGTAGTTGCACAGTATAATGCCAGTCAGCTCATTACTCAGAGAGAGgtaaatattt ... tgtttaacagAATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCCTCCCAGTTT
EST: gi|12688335|gb|BG154671.1|BG154671
EST:     AAGCTGTAGTTGCACAG-ATAATGCCAGTCAGCTCATTACTCAGAGAGAG                         AATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCCTCCCAGTTT
genomic: AAGCTGTAGTTGCACAGTATAATGCCAGTCAGCTCATTACTCAGAGAGAGgtaaatattt ... tgtttaacagAATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCCTCCCAGTTT
EST: gi|23735502|gb|BU766034.1|BU766034
EST:     AAGCTGTAGTTGCACAGTATAATGCCAGTCAGCTCATTACTCAGAGAGAG                         AATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCCTCCCAGTTT
genomic: AAGCTGTAGTTGCACAGTATAATGCCAGTCAGCTCATTACTCAGAGAGAGgtaaatattt ... tgtttaacagAATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCCTCCCAGTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaattatagccttataagtgggactgattgtttctagaacatactgtttaacagAATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCCTCCCAGTTTAACATTGCTTTGGATGATGTGTCAATCACAAGTTTGACGTTTGGGAAGG
                      gactgat  putative branch site (score: 3)
            ttataagt  TA-rich tract