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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacattatctaagacccccttttcaacatttttcttttctggcttggaaagagcggtaattggtttgtgtaaatactttgatgattgtttgtctatctatagatctcatttcaaagcaatcaagaaccttgtcagagcctaattgtgaggaatctaattctgttatataatggaactttttagGTACTTCTTCTGAGAAGGAAACTCACATGACTGGAATCTATGACTTGGTCGCTGTGTTGACCCACAAGGGCAGGAGTGCAGACTCTGGTCATTATGTTGC

Basic information

species Arabidopsis thaliana
transcript AT1G51710.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G51710.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GRMZM2G017086_T03 (Zea mays), 3'ss of exon 15
gtacattatctaagacccccttttcaacatttttcttttctggcttggaaagagcggtaattggtttgtgtaaatactttgatgattgtttgtctatctatagatctcatttcaaagcaatcaagaaccttgtcagagcctaattgtgag-----gaatctaattctgttatataatggaactttttagGTACTTCTTCTGAGAAGGAAACTCACATGACTGGAATCTATGACTTGGTCGCTGTGTTGACCCACAAGGGCAGGAGTGCAGACTCTGGTCATTATGTTGC
                                                                                 | | |||    |||| || ||   ||        |   ||| || ||  ||  || |     ||   ||      ||  || ||   | || |  |  |      |  ||   |  |||   || |||||  |  | |||||  ||||||| ||||| ||||| ||||| |||||||| || |||||||||||||| || ||||||| 
-------------------------------------------------------------------------------gaaagtttgaccctctacctgtaaggct------gtaatgatcgaggacactgctagtgttatcttactagcttctaaacttagtttgctcatgtgttaaatgcagCTGAGT--CTTCTCTACCAAAGAAAC--AATTAACTGGCGTCTATGATTTGGTTGCTGTCTTGACACACAAGGGAAGAAGTGCAGACTCTGGCCACTATGTTGG

upper sequence: AT1G51710.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GRMZM2G028733_T01 (Zea mays), 3'ss of exon 15
gtacattatctaagacccccttttcaacatttttcttttctggcttggaaagagcggtaat-tggtttgtgtaaatactttgatgattgtttgtctatctatagatctcatttcaaagcaatcaagaaccttgtcagagcctaat-tgtgaggaatctaattctgttatataatggaactttttagGTACTTCTTCTGAGAAGGAAACTCACATGACTGGAATCTATGACTTGGTCGCTGTGTTGACCCACAAGGGCAGGAGTGCAGACTCTGGTCATTATGTTGC
                        |||  || ||  |||||| | |  |    |   | ||     || |    | ||||   |  |||    | |||   |||  | ||        ||  |     | |||      |  |||     |   |     ||   |  | |  |  |      |  ||   |  |||   || |||||  |  | |||||  ||||||| ||||| ||||| ||||| |||||||| || |||||||||||||| || ||||||| 
-----------------------gcaa-gttgtttgtttctgccctc-attttgtaatgatacaccttattgtcaaacttcatttcttgggattatattcttaggacccaaaaagtttcaccctttgtctttgatgatacgcaatacaatatccaaaaggtttgctcgtgtgttaaatgcagCTGAGT--CTTCTCTACCAAAGAAAC--AATTAACTGGCGTCTATGATTTGGTTGCTGTCTTGACACACAAGGGAAGAAGTGCAGACTCTGGCCACTATGTTGG

upper sequence: AT1G51710.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA08G20900.1 (Glycine max), 3'ss of exon 15
gtacattatctaagacccccttttcaacatttttcttttctggcttggaaagagcggtaattggtttgtgtaaatactttgatgattgtttgtctatctatagatctcatttcaaagcaatcaagaaccttgtcagagcctaattgtgaggaatctaattctgttatataatggaactttttagGTACTTCTTCTGAGAAGGAAACTCACATGACTGGAATCTATGACTTGGTCGCTGTGTTGACCCACAAGGGCAGGAGTGCAGACTCTGGTCATTATGTTGC---------
                                                                     ||||| || |  |  ||| |  | |||   ||  || | |||| |               || |       |  || |    |  |   ||||| | | || |  |   | |   || ||     ||| |||||||| || ||||||||||| ||||| ||||| ||||| || |||||||||||||| ||||| || || || ||||||||||          
---------------------------------------------------------------------gtaaaaacctgcaacattat--gcctactcatttattt-atttta--------------ttttttgtttttttgttttctcaatccgctttctgctttttactccattctct---gt-ctatagGTGAAAAGGAAACACAGATGACTGGAATTTATGATTTGGTTGCTGTATTAACCCACAAGGGCAGAAGTGCTGATTCAGGACATTATGTTGGTTGGGTCAA

upper sequence: AT1G51710.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA07G01480.1 (Glycine max), 3'ss of exon 15
gtacattatctaagacccccttttcaacatttttcttttctggcttggaaagagcggtaattggtttgtgtaaatactttgatgattgtttgtctatctatagatctcatttcaaagcaatcaagaaccttgtcagagcctaattgtgaggaatctaattctgttatataatggaactttttagGTACTTCTTCTGAGAAGGAAACTCACATGACTGGAATCTATGACTTGGTCGCTGTGTTGACCCACAAGGGCAGGAGTGCAGACTCTGGTCATTATGTTGC---------
                                                                     ||||| || |  |  ||| |    |||   |||    | ||||              |  ||||       |  || |    |  |   ||||| | | || |  |   | |   || ||     ||| |||||||| || ||||||||||| ||||| ||||| ||||| || ||||||||||| || ||||| || || || ||||||||||          
---------------------------------------------------------------------gtaaaaacctgcaacattatg---ctactcata---tttattt--------------attttgtt-----tttgttttctcaatccactttctgctttttactccattctct---gt-ctatagGTGAAAAGGAAACACAGATGACTGGAATTTATGATTTGGTTGCTGTATTAACCCACAAGGGTAGAAGTGCTGATTCAGGACATTATGTTGGTTGGGTCAA

upper sequence: AT1G51710.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: Vv09s0002g02500.t01 (Vitis vinifera), 3'ss of exon 15
gtacattatctaagacccccttttcaacatttttcttttctggcttggaaagagcggtaattggtttgtgtaaatactttgatgattgtttgtctatctatagatctcatttcaaagcaatcaagaaccttgtcagagcctaattgtgaggaatctaattctgttatataatggaactttt-tagGTACTTCTTCTGAGAAGGAAACTCACATGACTGGAATCTATGACTTGGTCGCTGTGTTGACCCACAAGGGCAGGAGTGCAGACTCTGGTCATTATGTTGC
                                                                                    ||    |||   | | | ||   | ||  |   || |   | ||  || |   |   |  | |      |  | ||  |||    | |     |  |  |||   | |  | || |||||||| ||| |||||||||| |||||  |||| ||||||||||||||||||||||||||||| || || || |||||||||||
------------------------------------------------------------------------------------atgtaatgtgcttatgtcgaatcccttctatgacagtgctgcactatgcctatgga-acgtctctcttttgcagtttggttgctaactttgtttactgcagGCGTTCCAACCGACAAGGAAACACACTTGACTGGAATTTATGATCTGGTTGCTGTGTTGACCCACAAGGGCAGGAGTGCTGATTCAGGGCATTATGTTGC

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|116485386|gb|EG527978.1|EG527978
EST:     GCGTCTGCAAATGGAAGTGGAGAATCATCCACAGTAAACCCACAGGAAG                         GTACTTCTTCTGAGAAGGAAACTCACATGACTGGAATCTATGACTTGGTCG
genomic: GCGTCTGCAAATGGAAGTGGAGAATCATCCACAGTAAACCCACAGGAAGgtacattatc ... aactttttagGTACTTCTTCTGAGAAGGAAACTCACATGACTGGAATCTATGACTTGGTCG
EST: gi|125019217|gb|EL091486.1|EL091486
EST:     TAAACCCACAGGAAG                         GTACTTCTTCTGAGAAGGAAACTCACATGACTGGAATCTATGACTTGGTCG
genomic: TAAACCCACAGGAAGgtacattatc ... aactttttagGTACTTCTTCTGAGAAGGAAACTCACATGACTGGAATCTATGACTTGGTCG
EST: gi|86084161|gb|DR379920.1|DR379920
EST:     GCGTCTGCAAATGGAAGTGGAGAATCATCCACAGTAAACCCACAGGAAG                         GTACTTCTTCTGAGAAGGAAACTCACATGACTGGAATCTATGACTTGGTCG
genomic: GCGTCTGCAAATGGAAGTGGAGAATCATCCACAGTAAACCCACAGGAAGgtacattatc ... aactttttagGTACTTCTTCTGAGAAGGAAACTCACATGACTGGAATCTATGACTTGGTCG
EST: gi|125269879|gb|EL283964.1|EL283964
EST:     GCGTCTGCAAATGGAAGTGGAGAATCGTCCACAGTAAACCCACAGGAAG                         GTACTTCTTCTGAGAA
genomic: GCGTCTGCAAATGGAAGTGGAGAATCATCCACAGTAAACCCACAGGAAGgtacattatc ... aactttttagGTACTTCTTCTGAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtcagagcctaattgtgaggaatctaattctgttatataatggaactttttagGTACTTCTTCTGAGAAGGAAACTCACATGACTGGAATCTATGACTTGGTCGCTGTGTTGACCCACAAGGGCAGGAGTGCAGACTCTGGTCATTATGTTGC
                       atctaat  putative branch site (score: 3)
                                               cttttt  putative PPT
                      aatctaattctgttat  TA-rich tract