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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggagaacaacacctaaaacagaatggaactgtatctaagttgtcctttggtttttgatgatttttctctttcggtgttgatttgtgttcaattttgcagGCTGGATTTGCTGGAGATGATGCTCCAAGGGCTGTGTTCCCTAGCATTGTGGGTCGTCCACGCCACACTGGTGTGATGGTTGGAATGGGGCAAAAGGACG

Basic information

species Glycine max
transcript GLYMA02G29160.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G29160.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv08s0007g06520.t01 (Vitis vinifera), 3'ss of exon 1
tggagaacaacacctaaaacagaatggaact-gtatctaagttgtcctttggtttttgatgatttt---tctctttcggtgttgatttgtgttcaattttgcagGCTGGATTTGCTGGAGATGATGCTCCAAGGGCTGTGTTCCCTAGCATTGTGGGTCGTCCACGCCACACTGGTGTGATGGTTGGAATGGGGCAAAAGGACG
     |   |  |  ||  || ||||    | |  | |  |   |   |||| ||| ||  ||      |  |||      ||||||  |  | || ||| ||||||||||||||||||||||||||||| ||||||||||| ||||||||||||||| | || || |||||||| ||||||||||| ||||| || || || |
---gtattgattcagaatccaaaatgttgtttgagtttgtgggattgattggatttggagaatacccagttgcttatttctttgattctttctgaaattt-cagGCTGGATTTGCTGGAGATGATGCTCCGAGGGCTGTGTTTCCTAGCATTGTGGGTAGACCTCGACACACTGGAGTGATGGTTGGGATGGGACAGAAAGATG

upper sequence: GLYMA02G29160.2 (Glycine max), 3'ss of exon 2
lower sequence: EDO98923 (Chlamydomonas reinhardtii), 3'ss of exon 1
tggagaacaacacctaaaacagaa-tggaactgtatctaagttgtcctttggtttttgatgatttttctctttcggtgttgatttgtgttcaattttgcagGCTGGATTTGCTGGAGATGATGCTCCAAGGGCTGTGTTCCCTAGCATTGTGGGTCGTCCACGCCACACTGGTGTGATGGTTGGAATGGGGCAAAAGGACG
        |||          |   |||    |   |   | ||      | | || ||  |    |     | |   | | | |||   |   |  ||||||||| |||||||| |||||||| ||  | |||||||||||   ||| ||||| || || |||||||| ||||||||||| || ||||| || |||    
-tccatttaacttgggcgttgggcctggcgtgggccccgcgctgcagcgcgttgttcgagcaaacctgatgctggcgatcgctgtgtcgccgtgtccgcagGCTGGCTTTGCTGGTGATGATGCCCCTCGCGCTGTGTTCCCCTCCATCGTGGGCCGGCCCCGCCACACCGGTGTGATGGTCGGGATGGGCCAGAAG----

upper sequence: GLYMA02G29160.2 (Glycine max), 3'ss of exon 2
lower sequence: PP1S381_21V6.1 (Physcomitrella patens), 3'ss of exon 2
tggagaacaacacctaaaacagaatggaactgtatctaagttgtcctttggtttttgatgatttttctctttcggtgttgatttg----tgttcaattt--tgcagGCTGGATTTGCTGGAGATGATGCTCCAAGGGCTGTGTTCCCTAGCATTGTGGGTCGTCCACGCCACACTGGTGTGATGGTTGGAATGGGGCAAAAGGACG
         |  | || |   | |     ||   |  | |  |||||| |   || |  |    || |  |      |||||       || |  || |  ||||||| || || || ||||| ||||||||  | |||||||| || ||||| || || || ||| | ||||||||||||||||| || ||||| || |||||||
-----ctgcattcttagatttgtagtttgctaccttaatgcagtccttcg-cgttaggcgtcagttgttgtggaagattgatccaaaaatggtgcatgtaatgcagGCCGGTTTCGCGGGAGACGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG

upper sequence: GLYMA02G29160.2 (Glycine max), 3'ss of exon 2
lower sequence: PP1S198_154V6.3 (Physcomitrella patens), 3'ss of exon 2
tggagaacaacacctaaaacagaatggaactgtatc--taagttgtcctttggtttttgatgatttttctctttcggtgttgatttgtgttcaatttt---gcagGCTGGATTTGCTGGAGATGATGCTCCAAGGGCTGTGTTCCCTAGCATTGTGGGTCGTCCACGCCACACTGGTGTGATGGTTGGAATGGGGCAAAAGGACG
     |||   | ||     |   |  |  | ||||   |  |  ||  |  |   || |    | || |     | ||   | |   || |   |||   ||||||||| || ||||||||||| || ||  | || ||||| || ||||| ||||| || ||  | ||||||||||||||||| || ||||| || |||||||
-----aaccttaacttgcgtaccctcaatttttatcatcacttcatctgtctggagttcacatctcttgtaacatgatgagtaatcacgtgcggattttatgcagGCTGGTTTCGCTGGAGATGACGCCCCCCGCGCCGTGTTTCCGAGCATCGTGGGACGGCCGAGGCACACTGGTGTGATGGTCGGTATGGGACAGAAGGACG

upper sequence: GLYMA02G29160.2 (Glycine max), 3'ss of exon 2
lower sequence: PP1S198_157V6.1 (Physcomitrella patens), 3'ss of exon 2
tggagaacaacacctaaaacagaatggaactgtatct---aagttgtcctttggtttttgatgatttttctctttcggtgttgat-ttgtgttcaattt-tgcagGCTGGATTTGCTGGAGATGATGCTCCAAGGGCTGTGTTCCCTAGCATTGTGGGTCGTCCACGCCACACTGGTGTGATGGTTGGAATGGGGCAAAAGGACG
       ||    | ||    |   |  |  || |     |  | ||  | |   | |    |        | |    ||||| | |||||   | ||| |||||||||| || ||||||||||| || ||  | || ||||| || ||||| ||||| || ||  | ||||||||||||||||| || ||||| || |||||||
-----gtcatgggccaagctgggtcgttatcgtcttcttcacatcgtggtatctctgtgatcggcacaaaacctaaaatgttggtattgtgcggattttatgcagGCTGGTTTCGCTGGAGATGACGCCCCCCGCGCCGTGTTTCCGAGCATCGTGGGACGGCCGAGGCACACTGGTGTGATGGTCGGTATGGGACAGAAGGACG

upper sequence: GLYMA02G29160.2 (Glycine max), 3'ss of exon 2
lower sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
-tggagaacaacacctaaaacagaatggaactgtatctaagttgtcctttggtttt--tgatgatttttctctttcggtgttgatttgtgttcaattttgcagGCTGGATTTGCTGGAGATGATGCTCCAAGGGCTGTGTTCCCTAGCATTGTGGGTCGTCCACGCCACACTGGTGTGATGGTTGGAATGGGGCAAAAGGACG
 | |     ||   | | ||| |  |    |||| |||| ||  |  |     | |  | | |    |   | |   |   | || ||       |  ||||||| || || || ||||||||||||||  | |||||||| || ||||| || || || ||| | ||||||||||||||||| || ||||| || |||||||
gtagtatcaaatctccacaaccgtct---tctgtgtctaggtcatgttggacctgtgtttaggccaatcaacatgtaggagtaatatggtgcatgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG

upper sequence: GLYMA02G29160.2 (Glycine max), 3'ss of exon 2
lower sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
tggagaacaacacctaaaacagaatggaactgtatctaagttgtcctttggtttttgatgatttttctctttcggtgttgatttgtg---ttcaattttgcagGCTGGATTTGCTGGAGATGATGCTCCAAGGGCTGTGTTCCCTAGCATTGTGGGTCGTCCACGCCACACTGGTGTGATGGTTGGAATGGGGCAAAAGGACG
                                               |  | |  ||  |   ||||| | | | | |||||  | |   |    | ||||||||||||||||| ||||| |||||||| ||||| ||||| || ||||||||||| || ||    ||||| || || ||||||||||||||||| ||||| |
----------------------------------------------gtgcgctcctggcgcggtttct-tgtggattttgatccggggggtgtgttcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG

upper sequence: GLYMA02G29160.2 (Glycine max), 3'ss of exon 2
lower sequence: EFJ35077 (Selaginella moellendorffii), 3'ss of exon 1
tggagaacaacacctaaaacagaatggaactgtatctaagttgtcctttggtttttgatgatttttctctttcggtgttgatttgtg---ttcaattttgcagGCTGGATTTGCTGGAGATGATGCTCCAAGGGCTGTGTTCCCTAGCATTGTGGGTCGTCCACGCCACACTGGTGTGATGGTTGGAATGGGGCAAAAGGACG
                                               |  | |  ||  |   ||||| | | | | |||||  | |   |    ||||||||||||||||||| ||||| |||||||| ||||| ||||| || ||||||||||| || ||    ||||| || || ||||||||||||||||| ||||| |
----------------------------------------------gtgcgctcctggcgcgatttct-tgtggattttgatccggggggtgtgtttttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG

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|254324687|gb|GR834112.1|GR834112
EST:     GTGAGGATATACAACCTCTTGTTTGTGATAATGGAACTGGAATGGTCAAG                         GCTGGATTTGCTGGAGATGATGCTCCAAGGGCTGTGTTCCCTAGCATTGTG
genomic: GTGAGGATATACAACCTCTTGTTTGTGATAATGGAACTGGAATGGTCAAGgtatgtatat ... aattttgcagGCTGGATTTGCTGGAGATGATGCTCCAAGGGCTGTGTTCCCTAGCATTGTG
EST: gi|209718162|gb|BW657808.1|BW657808
EST:     GTGAGGATATACAACCTCTTGTTTGTGATAATGGAACTGGAATGGTCAAG                         GCTGGATTTGCTGGAGATGATGCTCCAAGGGCTGTGTTCCCTAGCATTGTG
genomic: GTGAGGATATACAACCTCTTGTTTGTGATAATGGAACTGGAATGGTCAAGgtatgtatat ... aattttgcagGCTGGATTTGCTGGAGATGATGCTCCAAGGGCTGTGTTCCCTAGCATTGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttggtttttgatgatttttctctttcggtgttgatttgtgttcaattttgcagGCTGGATTTGCTGGAGATGATGCTCCAAGGGCTGTGTTCCCTAGCATTGTGGGTCGTCCACGCCACACTGGTGTGATGGTTGGAATGGGGCAAAAGGACG
                              tgttgat  putative branch site (score: 4)
      tttttgatgattttt  TA-rich tract