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'   		8  
 5'  3'   		9  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattttcagtcactggttaatgctgcctgaaatgcttgtggagcagaaatgttaacatttatgacatgtgattgttgtttcagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAATGGTGCCAAACAGCCAATGGTGCTTTGTTCCTTCTATCCACAAATGATA

Basic information

species Glycine max
transcript GLYMA08G20830.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G20830.4 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g41630.1 (Oryza sativa), 3'ss of exon 3
gtaattttcagtcactggttaatgctgcctgaaatgcttgtggagcagaaatgttaacatttatgacatgtgattgttgtttcagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAATGGTGCCAAACAGCCAATGGTGCTTTGTTCCTTCTATCCACAAATGATA
|||  ||  |  ||    | | ||||   |||| | | |||            |||||   | || | ||| || |   ||  ||||||| ||||| ||||| |||||||| |||||||| |||||||| || || |||||||||||||| ||||| || ||||| ||||| |||||||||||||
gtatattgta--caagactaactgcttagtgaagtacctgtaatttctgttgtttaactaatttgtcttgtcat-gcgatt--agTTTGATTATCTGAAGAGCTTGGAAATTGAAGAGAAGATTAACAAGATAAAGTGGTGCCAAACAGCAAATGGAGCATTGTTTCTTCTGTCCACAAATGATA

upper sequence: GLYMA08G20830.4 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os02g13110.2 (Oryza sativa), 3'ss of exon 3
------------gtaattttcagtcactggttaat--gctgcctgaaatgcttgtggagcagaaatgttaacatttatgacatgtg-attgttgtttcagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAATGGTGCCAAACAGCCAATGGTGCTTTGTTCCTTCTATCCACAAATGATA
              ||     |  |||||  |  |    ||     ||   |  ||||         ||    ||| |||  | |   |  |   |  |||| ||||| || || |||||||||||||| ||||| |||||||| ||||| |||||||||||||||||    ||  | || ||  |||| ||||||||||
aggattatcttaccaagccatatgcactgcatgttagattgttattaactatcctggaatttctcaatttgtttttctgatttatatgtaatccatgtagTTCGACTACCTAAAAAGTTTGGAAATAGAGGAGAAGATTAACAAGATCAAGTGGTGCCAAACAGCCAACAACGCCCTCTTTCTCTTATCTACAAATGATA

upper sequence: GLYMA08G20830.4 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os06g36770.1 (Oryza sativa), 3'ss of exon 3
---------------gtaattttcagtcactggttaatgct-gcctgaaatgcttgtggagcagaaatgttaacatttatgacatgtgattg--ttgtttcagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAATGGTGCCAAACAGCCAATGGTGCTTTGTTCCTTCTATCCACAAATGATA
                |  |  |  |    || ||  | || || |||| | ||||   |   ||||   | |||| ||||   | |   ||   ||||  ||||||| || || || |||||||||||||| ||||| || ||||| ||||  |||||||| |||||||||  | |  | | |||||| || ||||||||||
atgaagcattacattattgtgctatgctcttgttttgttcttgcttgaattacttgcata-tggaaac--tcacatctatgtttttttgatgaactgttctagTTTGATTACCTCAAAAGTTTGGAAATAGAGGAGAAGATCAACAAGATCAGGTGGTGCCAGACAGCCAATAATTCACTCTCCCTTCTGTCTACAAATGATA

upper sequence: GLYMA08G20830.4 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 3
--gtaatttt-cagtcactggttaatgctgcctgaaatgcttgtggagca---gaaatgttaacatttatgacatgtgattgttgtttcagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAATGGTGCCAAACAGCCAATGGTGCTTTGTTCCTTCTATCCACAAATGATA
   || | |  ||  || || | | || |        | ||| || |  |   ||||| || | |   | |  ||||  || | |  ||||||||| ||||||||||| |||||||| |||||||| |||||| |||| |||||||| ||| |||| |||||||| ||||  ||||||||||||||||| |
gtatattctcacaaacattgttaagtggtattatttgt-cttctgaattacttgaaat-ttgata---aagtgatgttgttatggaatcagTTTGATTATCTTAAGAGCTTGGAAATTGAAGAGAAGATTAACCAAATAAAATGGTGTCAAGCAGCAAATGGTGCATTGTATCTTCTATCCACAAATGACA

upper sequence: GLYMA08G20830.4 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G069631_T02 (Zea mays), 3'ss of exon 3
---------gtaattttcagtcactggttaatgctgcc-tgaaatgcttgtgga-gcagaaatgttaacatt----tatgacatgtgattgttgttt-cagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAATGGTGCCAAACAGCCAATGGTGCTTTGTTCCTTCTATCCACAAATGATA
           || |  || || |  || || ||||   | | || || |   | |   || ||| || |||    | |||| | ||     ||  |  |||||||||| || || |||||||||||||||||||| |||||||| ||||| |||||||||||| ||||   |||  | || ||  | || |||||||| |
atacatagtccaaatgacactcccaagtgaa-gctgtagttatatactggaatatgtgaaattgtgaatatttttttctgacttctgtgcaatgcatgtagTTTGACTACCTAAAAAGTTTGGAAATAGAAGAGAAGATTAACAAGATCAAGTGGTGCCAAACAACCAACAATGCACTCTTTCTCTTGTCTACAAATGACA

upper sequence: GLYMA08G20830.4 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G142334_T02 (Zea mays), 3'ss of exon 3
--gtaatttt-cagtcactggttaatgctgcctgaaatgcttgtggagca---gaaatgttaacatttatgacatgtgattgttgtttcagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAATGGTGCCAAACAGCCAATGGTGCTTTGTTCCTTCTATCCACAAATGATA
   || | |  ||  || || ||| || |        | ||| || |  |   ||||| || |||   | |  |||| ||| |||  | ||||||| || || ||||| |||||||| |||||||| |||||| |||| || ||||| ||| || | ||| |||| ||||| ||||||||||||||||| |
gtatattctcgcaagcattgtttagtggtattatttgt-cttatgaattacttgaaat-ttgaca---aagtgatgttattattgaat-agTTTGATTACCTCAAGAGCTTGGAAATTGAAGAGAAGATTAACCAAATAAAGTGGTGTCAAGCAACAAATTGTGCATTGTTTCTTCTATCCACAAATGACA

upper sequence: GLYMA08G20830.4 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G165418_T02 (Zea mays), 3'ss of exon 4
--------gtaattttcagtcactggttaatgctgcct-----gaaatgcttgtggagcagaa--atgttaacatttatgacatgtg-attgttgtttcagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAATGGTGCCAAACAGCCAATGGTGCTTTGTTCCTTCTATCCACAAATGATA
        |  | |  ||    ||  ||  || | |||      || |  | || ||    |   |||| |   ||  |    | |   |  || ||  |||||||||| || || |||||||||||||| || || || ||||  ||||| |||||||| ||||||||   |||| | | |||| | || ||||||||||
tgctgtatgccagtaccatgtgcta-ttcttgtttcctttcaaaaattaatggtagattgaagttatgtcagggttcctattttttatgtaattcttgtagTTTGACTACCTCAAAAGTTTGGAAATAGAGGAAAAGATCAACAGGATCAAGTGGTGCCAGACAGCCAACAATGCTCTCTCCCTTTTGTCTACAAATGATA

upper sequence: GLYMA08G20830.4 (Glycine max), 3'ss of exon 3
lower sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 3
gta-attttcagtcactggttaatgctgcctg-aaatgcttgtggagcagaaatg--ttaacatttatgacatgtgattgttgtttcagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAATGGTGCCAAACAGCCAATGGTGCTTTGTTCCTTCTATCCACAAATGATA
||| |||   | | |       ||    | |   | |  |||||   |   |     | || |    ||   |   ||   ||||||||||||||||||| ||||||||||| ||||| |||||||| |||||||||| |||||| ||  |||| |||||||| ||||| || || || ||||| ||||
gtacattaaaacttatcaccagatttcacttacgagtaattgtgttccttgagctactcaataagcttgcttttcaatc--tgtttcagTTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGATGGTGTCAGCCAGCTAATGGTGCATTGTTTCTGCTTTCTACAAACGATA

upper sequence: GLYMA08G20830.4 (Glycine max), 3'ss of exon 3
lower sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 5
gtaattttcagtcactggttaatgctgcctgaaatgcttg--tggagcagaaatgttaacatttatgacatgtgattgttgtttcagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAATGGTGCCAAACAGCCAATGGTGCTTTGTTCCTTCTATCCACAAATGATA
||| ||      | ||| ||  | ||  || |  |  |||  |  | |    || |     || |||   | |  ||||| |  |||||||| || || ||||||||||| ||||| ||||||||||||||||| | |||||| |||||||| ||||| ||| | || || || || || |||||||
gtatttgatttactctgttttcttcttactcagctatttggctataccttttatctgtcttttcatgctctatccttgtt-taccagTTTGATTACCTCAAGAGTTTGGAGATAGAGGAGAAAATTAACAAAATTAGATGGTGTCAAACAGCAAATGGAGCTCTTTTTCTCCTCTCGACCAATGATA

upper sequence: GLYMA08G20830.4 (Glycine max), 3'ss of exon 3
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 3
gtaattttcagtcactggttaatgctgcctgaaatgcttgtggagca--------------------gaaatgttaacatttatgacatgt-gattgttgttt-----cagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAATGGTGCCAAACAGCCAATGGTGCTTTGTTCCTTCTATCCACAAATGATA
|||  ||||  |||   |||| | ||||||||| |   | || | ||                    ||||||||   ||| ||| ||  | | || || | |     |||||||||||||| ||||| ||||||||||| |||||||| || || |||| ||||||||| ||||| ||||||||  |||| |||||||| || |||||||
gta--tttctttcatcagttactcctgcctgaagtttgtttgcaccaccctttgctcactaggctctgaaatgttttaattgatgccacattgcttattctctgtgctcagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGATGGTGCCAGACAGCAAATGGTGCCCTGTTTCTTCTATCTACGAATGATA

upper sequence: GLYMA08G20830.4 (Glycine max), 3'ss of exon 3
lower sequence: PP1S301_53V6.1 (Physcomitrella patens), 3'ss of exon 3
---gtaattttcagtcactggttaatgctgcctgaaatgc-------------ttgtggagcagaaatgttaacatttatgacatgtgattgttgtttcagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAATGGTGCCAAACAGCCAATGGTGCTTTGTTCCTTCTATCCACAAATGATA
    |  || | ||  || |  |   | ||  |    |||             || |     |   |||    | ||| ||| || || ||| |  | |||||||| ||| | ||||||||||||||||| ||||| || || ||||| |  |||||||| || || |||| ||||  |||||| || || |||||||| |
gggattgttctgagatacagtatggcgttgattttgttgcacttcgtttccagttctatcttactgatgcctgcttttttga-atatgtttggttatgcagTTTGATTATTTGAAGAGTTTGGAAATAGAGGAGAAGATCAATAAAATTAGGTGGTGCCAGACTGCTAATGCTGCTCAGTTCCTACTTTCTACAAATGACA

upper sequence: GLYMA08G20830.4 (Glycine max), 3'ss of exon 3
lower sequence: PP1S100_124V6.1 (Physcomitrella patens), 3'ss of exon 3
----------------------gtaattttcagtcactggttaatgctgcctgaaatgcttgtggagcagaaatgttaacatttatgacatgtgattgttgtttcagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAATGGTGCCAAACAGCCAATGGTGCTTTGTTCCTTCTATCCACAAATGATA
                      |||||   ||||  |   |||    ||   |  |  | | |    |  | | ||   | ||| ||| ||||  ||  |  | ||||| || || || ||||||||||||||||| ||||| || |||||||| | ||||||||| ||  |||||| |||   ||| || || || |||||||| |
tgtgtagggatactgtttgacggtaatc--cagttgc--attacacttgttggtcaatcctattttacgaacacgt--gcttttctga-atgtattttgttatgcagTTCGATTACCTGAAGAGTTTGGAAATAGAGGAGAAGATCAACAAAATAAGATGGTGCCAGACCACCAATGCTGCCCAGTTTCTACTTTCTACAAATGACA

upper sequence: GLYMA08G20830.4 (Glycine max), 3'ss of exon 3
lower sequence: PP1S425_2V6.1 (Physcomitrella patens), 3'ss of exon 3
-----------gtaattttcagtcactggttaatgctgcctgaaat---gcttgtggagcagaaat-gttaacatttatgacatgtgattgttgttt-cagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAATGGTGCCAAACAGCCAATGGTGCTTTGTTCCTTCTATCCACAAATGATA
           ||  |||| | |   ||   ||   ||    || |     |||  |  ||   || |||  || || |   || || || || ||| |||||||| ||  | ||||||||||||||||| ||||| || || ||||| | ||||||||| || |||||||  |||  ||| || || || || |||||||
ttatttgttgtgttgttttgattttttgaaaaaaattgtaataattttaatttgaagttcactgatcgttttcactt-tcgtatatgcttcttctttgcagTTTGATTACTTAAAGAGTTTGGAAATAGAGGAGAAGATCAATAAAATTAGATGGTGCCAGACTGCCAATGCCGCTCAGTTTCTACTTTCTACCAATGATA

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|207729375|gb|GD709147.1|GD709147
EST:     GACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAG                         TTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAA
genomic: GACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAGgtaattttca ... gttgtttcagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAA
EST: gi|193304649|gb|FK272694.1|FK272694
EST:     GACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAG                         TTTGACTATCTTAAGAGT
genomic: GACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAGgtaattttca ... gttgtttcagTTTGACTATCTTAAGAGT
EST: gi|7690859|gb|AW758996.1|AW758996
EST:     GACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAG                         TTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAA
genomic: GACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAGgtaattttca ... gttgtttcagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAA
EST: gi|193635750|gb|FK580343.1|FK580343
EST:     GACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAG                         TTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAA
genomic: GACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAGgtaattttca ... gttgtttcagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAA
EST: gi|308099093|gb|HO760934.1|HO760934
EST:     GACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAG                         TTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAA
genomic: GACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAGgtaattttca ... gttgtttcagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaatgcttgtggagcagaaatgttaacatttatgacatgtgattgttgtttcagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAATGGTGCCAAACAGCCAATGGTGCTTTGTTCCTTCTATCCACAAATGATA
                     tgttaac  putative branch site (score: 2)
                                              ttgtttc  putative PPT
                  aaatgttaacatttat  TA-rich tract