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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatagagtccttgaccttaaataccatttttgctttactttgtgtccactgtctatccttttcctgttactctttttgcataaacaatatacctaactcgttaaaattccttgcagATGATGTGGCGGCTTAATTTTTTTGTGGCCTTCTGTTGTATTGTGCTTAACAATGACTATATGCTCTACTATATATGCCCAATGCACACGCTTTTCACTT

Basic information

species Glycine max
transcript GLYMA05G25780.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G25780.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os05g50510.1 (Oryza sativa), 3'ss of exon 7
gtaatagagtccttgaccttaaataccatttttgct---ttactttgtgtccactgtctatccttttcctgttactctttttgcataaacaatatacctaactcgttaaaattccttgcagATGATGTGGCGGCTTAATTTTTTTGTGGCCTTCTGTTGTATTGTGCTTAACAATGACTATATGCTCTACTATATATGCCCAATGCACACGCTTTTCACTT
                       | ||||  | ||    |||     |||    | |    ||||    ||||       |   | ||| | || |    |    |||||      |||||||||||||| |||| ||||| ||||||||||||||||| ||||| ||| ||||||| || ||||| || |||||||| ||||||||||| ||||| ||| 
---------------------gtttccatcctagcccaattatccaatgttgtttcttaccccttgatttgttgtaaccatcttagaaatactaaagaccatcttttaaa------tgcagATGATGTGGAGGCTAAATTTCTTTGTGGCCTTCTGTTGCATTGTCCTTGACAATGATTACATGCTGTATTATATATGTCCAATGCACACACTTTTTACTC

upper sequence: GLYMA05G25780.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g44040.2 (Oryza sativa), 3'ss of exon 7
gtaatagagtccttgaccttaaataccatttttgctttactttgtgtccactgtctatccttttcctgttactctttttgcataaacaatatacctaactcgttaaaattcct-tgcagATGATGTGGCGGCTTAATTTTTTTGTGGCCTTCTGTTGTATTGTGCTTAACAATGACTATATGCTCTACTATATATGCCCAATGCACACGCTTTTCACTT
    |    | || || ||| ||  ||| | | | | ||  |  |        | ||   | ||    || |  |  ||  ||  |   | |||          | | |||   |||||||||||||| | ||||||||||||||||| ||||| || ||||| ||| ||||||| || |||||||| || |||||||||||||||||  | || ||| 
---gtgccattct-gatctttaaccccaatct-gttctatatgatac------tttagtatgttttcatttccttgatttaatgcatggtttacactgacaaccatatttctaatgcagATGATGTGGAGACTTAATTTTTTTGTGGCTTTCTGCTGCATTGTCCTTGACAATGATTACATGCTCTATTACATATGCCCAATGCACACTTTGTTTACTC

upper sequence: GLYMA05G25780.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G463445_T01 (Zea mays), 3'ss of exon 2
gtaatagagtccttgaccttaaataccatttttgctttactttgtgtcc-actg--tctatcct------tttcctgttactctttttgcataaacaatatacctaactcgttaaaattccttgcagATGATGTGGCGGCTTAATTTTTTTGTGGCCTTCTGTTGTATTGTGCTTAACAATGACTATATGCTCTACTATATATGCCCAATGCACACGCTTTTCACTT
        || | |   ||     | || | ||  |||    | ||||| | ||  | ||  ||      |||| ||||||    |||   ||| || || ||| ||    |  |  |||| || ||||||||||| || | ||||| |||||||| |||||||| ||||| ||| |||||||    |||||||| |||||||||||||||||||| || || ||| 
--------gtgcctatgctacctcatcagtcttattttgtgctatgtcctaatgagtttagtctcctgtatttcttgttaccgccttt---taagcactagacc-aataactatactttccatgtagATGATGTGGAGGTTAAATTTCTTTGTGGCATTCTGTTGCATTGTCCTTGACAATGATCTCATGCTCTATTATATATGCCCAATGCACACACTATTTACTC

upper sequence: GLYMA05G25780.1 (Glycine max), 3'ss of exon 8
lower sequence: AC218988.3_FGT003 (Zea mays), 3'ss of exon 2
gtaatagagtccttg--acctta--aataccatttt-tgctttactttg-tgtccactgtctatcct-tttcctgttactctttttgcataaacaatatacctaactcgttaaaattccttgcagATGATGTGGCGGCTTAATTTTTTTGTGGCCTTCTGTTGTATTGTGCTTAACAATGACTATATGCTCTACTATATATGCCCAATGCACACGCTTTTCACTT
      | |||  ||  |||| |  | |   ||||| |||| | |  |  ||      ||||    | |||  ||||||    |||   ||| || || ||| ||    |  |  |||| |||||||||||||| || | ||||| |||||||| |||||||| ||||| ||| |||||||    |||||||| |||||||||||||||||||| || || ||| 
------gtgtctatgctacctcatcagtcttattttgtgctatgccctaatgagtttagtctcctgtattttttgttaccgccttt---taagcactagacc-aataactatactttccatgcagATGATGTGGAGGTTAAATTTCTTTGTGGCATTCTGTTGCATTGTCCTTGACAATGATCTCATGCTCTATTATATATGCCCAATGCACACACTATTTACTC

upper sequence: GLYMA05G25780.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G458538_T01 (Zea mays), 3'ss of exon 2
gtaatagagtccttgaccttaaataccatttttgctttactttgtgtcc-actg--tctatcct------tttcctgttactctttttgcataaacaatatacctaactcgttaaaattccttgcagATGATGTGGCGGCTTAATTTTTTTGTGGCCTTCTGTTGTATTGTGCTTAACAATGACTATATGCTCTACTATATATGCCCAATGCACACGCTTTTCACTT
        || | |   ||     | || | ||  |||    | ||||| | ||  | ||  ||      |||| ||||||    |||   ||| || || | | ||    |  |  |||| |||||||||||||| |  | ||||| |||||||| |||||||| ||||| ||| |||||||    |||||||| |||||||||||||||||||| || || ||| 
--------gtgcctatgctacctcatcagtcttattttgtgctatgtcctaatgagtttagtctcctgtatttcttgttaccgccttt---taagcactagaac-aataactatactttccatgcagATGATGTGGAGATTAAATTTCTTTGTGGCATTCTGTTGCATTGTCCTTGACAATGATCTCATGCTCTATTATATATGCCCAATGCACACACTATTTACTC

upper sequence: GLYMA05G25780.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G147351_T01 (Zea mays), 3'ss of exon 1
gtaatagagtccttgaccttaaataccatttttgctttactttgtgtcc-actg--tctatcct------tttcctgttactctttttgcataaacaatatacctaactcgttaaaattccttgcagATGATGTGGCGGCTTAATTTTTTTGTGGCCTTCTGTTGTATTGTGCTTAACAATGACTATATGCTCTACTATATATGCCCAATGCACACGCTTTTCACTT
        || | |   ||     | || | ||  |||    | ||||| | ||  | ||  ||      |||| ||||||    |||   ||| || || ||| ||    |  |  |||| |||||||||||||| || | ||||| |||||||| |||||||| ||||| ||| |||||||    |||||||| |||||||||||||||||||| || || ||| 
--------gtgcctatgctacctcatcagtcttattttgtgctatgtcctaatgagtttagtctcctgtatttcttgttaccgccttt---taagcactagacc-aataactatactttccatgcagATGATGTGGAGGTTAAATTTCTTTGTGGCATTCTGTTGCATTGTCCTTGACAATGATCTCATGCTCTATTATATATGCCCAATGCACACACTATTTACTC

upper sequence: GLYMA05G25780.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G370741_T01 (Zea mays), 3'ss of exon 2
gtaatagagtccttg--acctta--aataccatttt-tgcttta-ctttgtgtccactgtctatcct-tttcctgttactctttttgcataaacaatatacctaactcgttaaaattccttgcagATGATGTGGCGGCTTAATTTTTTTGTGGCCTTCTGTTGTATTGTGCTTAACAATGACTATATGCTCTACTATATATGCCCAATGCACACGCTTTTCACTT
      | | |  ||  |||| |  | |   ||||| |||| |  | |  ||      ||||    | |||| ||||||    |||   ||| || || ||| ||    |  |  |||| |||||||||||||| || | ||||| |||||||| |||||||| ||||| ||| |||||||    |||||||| |||||||||||||||||||| || || ||| 
------gtgcctatgctacctcatcagtcttattttctgctatgtcctaatgagtttagtctcctgtatttcttgttaccgccttt---taagcactagacc-aataactatactttccatgcagATGATGTGGAGGTTAAATTTCTTTGTGGCATTCTGTTGCATTGTCCTTGACAATGATCTCATGCTCTATTATATATGCCCAATGCACACACTATTTACTC

upper sequence: GLYMA05G25780.1 (Glycine max), 3'ss of exon 8
lower sequence: AC208418.3_FGT009 (Zea mays), 3'ss of exon 3
gtaatagagtccttg--acctta--aataccatttt-tgcttta-ctttgtgtccactgtctatcct-tttcctgttactctttttgcataaacaatatacctaactcgttaaaattccttgcagATGATGTGGCGGCTTAATTTTTTTGTGGCCTTCTGTTGTATTGTGCTTAACAATGACTATATGCTCTACTATATATGCCCAATGCACACGCTTTTCACTT
      | |||  ||  |||| |  | |   ||||| |||| |  | |  ||      ||||    | |||  ||||||    |||   ||| || || ||| ||    |  |  |||| |||||||||||||| || | ||||| |||||||| || ||||| ||||| ||| |||||||    |||||||| |||||||||||||||||||| || || ||| 
------gtgtctatgctacctcatcagtcttattttgtgctatgtcctaatgagtttagtctcctgtattttttgttaccgccttt---taagcactagacc-aataactatactttccatgcagATGATGTGGAGGTTAAATTTCTTTGTGGCATTTTGTTGCATTGTCCTTGACAATGATCTCATGCTCTATTATATATGCCCAATGCACACACTATTTACTC

upper sequence: GLYMA05G25780.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G46340.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaatagagtccttgaccttaaataccatttttgctttactttgtgtccactgtctatccttttcctgttactctttttgcataaacaatatacctaactcgttaaaattccttgcagATGATGTGGCGGCTTAATTTTTTTGTGGCCTTCTGTTGTATTGTGCTTAACAATGACTATATGCTCTACTATATATGCCCAATGCACACGCTTTTCACTT
                                || |  | ||  | |||||        ||      || | | |  ||| |||| |   ||  ||||    ||    |  |||||||||||||||| |||| || || ||||| || || || |||||||| || ||||| ||||||||| | ||||| || |||||||||||||| ||||||||  
-------------------------------gtgatacaattcat-tccacaaaaagctctc-----gtcattgtacttg-ataatccgcat--ctaaaatcttggt-tctcttgcagATGATGTGGAGGCTGAACTTCTTTGTAGCGTTTTGCTGTATTGTTCTCAACAACGACTATATGTTATACTACATCTGCCCAATGCACACTCTTTTCACCC

upper sequence: GLYMA05G25780.1 (Glycine max), 3'ss of exon 8
lower sequence: AT2G34410.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaatagagtccttgaccttaaataccatttttgctttactttgt-gtccactgtctatccttttcctgt---tactctttttgcataaacaatataccta-actcgttaaaattccttgcagATGATGTGGCGGCTTAATTTTTTTGTGGCCTTCTGTTGTATTGTGCTTAACAATGACTATATGCTCTACTATATATGCCCAATGCACACGCTTTTCACTT
                   | | | | |||      ||| || || | |||   | ||| ||| |   |    |  | ||||     |  ||| || |  |       |   | | ||| |||||||||||||| ||||| || |||||||| ||  | || ||| | || || ||||| |||||||| ||||| || || ||||||||||| || |||||| 
------------------gtcatttcaattgcacagttaattagttgaccatgatatatgcttctaagggacatgttgttttcaatgactcaagatgctcatgaaaacttttacttcttccagATGATGTGGCGTCTTAACTTATTTGTGGCGTTTAGCTGCATTATTCTCAATAATGATTATATGCTGTACTACATCTGTCCAATGCACACTCTGTTCACTC

upper sequence: GLYMA05G25780.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G29890.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaatagagtccttgaccttaaataccatttttgctttactttgtgtccactgtctatccttttcctgt-tactctttttgcataaac--aatataccta-actcgttaaaattccttgcagATGATGTGGCGGCTTAATTTTTTTGTGGCCTTCTGTTGTATTGTGCTTAACAATGACTATATGCTCTACTATATATGCCCAATGCACACGCTTTTCACTT
     |||     |    |  |  |||||  ||  || | |||    |||     | | |||||   |   ||| | | |    || |  || ||   ||     | |   | |   | |||||||||||||||||||| ||||||||||| || ||||| ||| | || ||||||||||||||||| ||||| || || ||||||||||| || |||||  
--gtcagatcaactattttcgatcaccatagtttgttcagttta---ccatgtgatgttcttttagagagcactatgtctttcaaagctcaagatttttatgaaagcttttacttaatccagATGATGTGGCGGCTTAACTTTTTTGTGGCGTTTTGTTGCATTATTCTCAACAATGACTATATGCTGTACTACATCTGTCCAATGCACACTCTATTCACGC

upper sequence: GLYMA05G25780.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv10s0003g02830.t01 (Vitis vinifera), 3'ss of exon 2
gtaatagagtccttgaccttaaa---taccatttttgctttactttgtgtc-cactgt--ctatccttttcctgttactctttttgcataaacaatatacctaactcgttaaaattccttgcagATGATGTGGCGGCTTAATTTTTTTGTGGCCTTCTGTTGTATTGTGCTTAACAATGACTATATGCTCTACTATATATGCCCAATGCACACGCTTTTCACTT
    |    |  || |   | ||   |  |||  || || || |    ||   | |||  || | | ||| || |   ||  |||  ||||   |   |  | | || |||   |    ||||||||||||||||||| ||||| |||||||| || || || ||||| |||||||||||||| ||||| |||||||| ||||| |||||||||||||||||| 
---gtgaccttgttaattctgaactgtttcatcatttctctattagaagtgatattgttccttttcattttctatatttcaattttgataatttagg-atgtgaatctttactttctaatgcagATGATGTGGCGGCTAAATTTCTTTGTGGCATTTTGCTGCATTGTTCTTAACAATGACTACATGCTATACTATATCTGCCCCATGCACACGCTTTTCACTC

upper sequence: GLYMA05G25780.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S357_34V6.1 (Physcomitrella patens), 3'ss of exon 7
----------------------------gtaatagagtccttgaccttaaataccatttttgctttactttgtgtccac---------tgtctatccttttcctgttactctttttgcataaacaata---tacctaactcgt--taaaattccttgcagATGATGTGGCGGCTTAATTTTTTTGTGGCCTTCTGTTGTATTGTGCTTAACAATGACTATATGCTCTACTATATATGCCCAATGCACACGCTTTTCACTT
                            ||    |     |||        | |  | || || |   || |   | ||         |||  ||     ||| |||| | |||||  | || | |     ||||| | | ||  |  |     |  ||||||||||||||||| |||||| | ||   |||    ||||| ||||| ||||||||||| ||||| ||||| || || ||||||||||| ||||||||| 
gtatgtatgagcgtcttgaatatgattagtggcggtaattttggtgcgggttgcactgttagcctgttttcggaactacgaattcaagtgttcatgtacctccagttaatgtttttcaaaaatcgaaggggtaccttaatagtgcttgatgatgtgacagATGATGTGGCGGCTCAATTTTCTGGTCTTCTTTGCCTGTATAGTGCTGAACAATGACTACATGCTTTACTACATTTGTCCAATGCACACACTTTTCACTC

upper sequence: GLYMA05G25780.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S5_239V6.1 (Physcomitrella patens), 3'ss of exon 7
gtaatagagtccttgaccttaaataccatttttgctttactttgtgtccactgtctatccttttcctgttactctttttgcataaacaatatac-ctaactcgttaaaattccttg-cagATGATGTGGCGGCTTAATTTTTTTGTGGCCTTCTGTTGTATTGTGCTTAACAATGACTATATGCTCTACTATATATGCCCAATGCACACGCTTTTCACTT
                  ||    | |   ||||       | |  || | | ||  ||| ||    ||| ||  |     ||       || | || ||| | |   ||   ||| ||||||||||||||||| |||||  | ||   |||  | || ||||| || ||||||||||| ||||||||||| || || ||||||||||| || |||||| 
------------------ttcgcgatctgctttgagg-gtgtggaatcaagtatc-gtccattcttagttgcttctggataatcggagtcatgcactgactgggttcgatgatttggcagATGATGTGGCGGCTCAATTTCCTGGTCTTCTTTAGCTGCATTGTACTGAACAATGACTACATGCTCTACTACATCTGTCCAATGCACACTCTCTTCACTC

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|193645584|gb|FK590916.1|FK590916
EST:     ACGTTTTGCTCAG                         ATGATGTGGCGGCTTAA-TTTTTTGTGGCCTTCTGTTGTATTGTGCTTAAC
genomic: ACGTTTTGCTCAGgtaatagagt ... ttccttgcagATGATGTGGCGGCTTAATTTTTTTGTGGCCTTCTGTTGTATTGTGCTTAAC
EST: gi|193308879|gb|FK277843.1|FK277843
EST:     TCTCCTATTATTATGTTAGAAAAGATTTTAGCCTTCCACGTTTTGCTCAG                         ATGATGTGGCGGCTTAATTTTTT-GTGGCCTTCTGTTGTTATTGTGCTTAA
genomic: TCTCCTATTATTATGTTAGAAAAGATTTTAGCCTTCCACGTTTTGCTCAGgtaatagagt ... ttccttgcagATGATGTGGCGGCTTAATTTTTTTGTGGCCTTCTGTTGT-ATTGTGCTTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcctgttactctttttgcataaacaatatacctaactcgttaaaattccttgcagATGATGTGGCGGCTTAATTTTTTTGTGGCCTTCTGTTGTATTGTGCTTAACAATGACTATATGCTCTACTATATATGCCCAATGCACACGCTTTTCACTT
                             acctaac  putative branch site (score: 2)
                                             ttccttgc  putative PPT
                  ataaacaatata  TA-rich tract