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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttttttatttctgtttttactgagataatggtgttgtttgtgttttaagtgtttgaaatggtgggttttgttttgttgatttagtttggttttgtgttttgaagGTATTGCAAGTGCGAGATGCCTTATAACCCAGATGACCTCATGGTGCAGTGTGAGGGGTGCAAGGATTGGTAAAACCAGTATATTCTGCTTTTTTTTGTT

Basic information

species Glycine max
transcript GLYMA13G34740.3
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G34740.3 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os09g21770.1 (Oryza sativa), 3'ss of exon 2
------------------gtaagtttttttatttctgttttta---ctgag-ataatggtgttgtttgtgttttaagtgt-ttga-aatggtgggttttgttttgttgatttagtttggttttgtgt-tttgaagGTATTGCAAGTGCGAGATGCCTTATAACCCAGATGACCTCATGGTGCAGTGTGAGGGGTGCAAGGATTGGTAAAACCAGTATATTCTGCTTTTTTTTGTT
                       |||||| ||   || ||||    |||    |  |  ||   | || | |||   |||  ||| |||||| |||  || ||| | | ||  || ||  | ||||| | || ||||| ||||||||||||||||| |||||||| ||||| || ||||||||||| ||||| |||||||| ||                               
gtatttgctccaaccccccctccttttttgatcattgattttgcatctgcttgttgttatgcaatgtgggctttggttgtactgataatggttggtggtggttt-tggtttgggtgtgtgtgtgtgtgtgtgcagGTACTGCAAGTGCGAGATGCCGTATAACCCGGATGATCTAATGGTGCAGTGCGAGGGATGCAAGGACTG-------------------------------

upper sequence: GLYMA13G34740.3 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os08g32620.1 (Oryza sativa), 3'ss of exon 2
------------gtaagtttttttatttctgttttt-actgagataatggtgttgtttgtgttttaagtgt--ttgaaatggtgggttttgttttgt---tgatttagtttggttttgtgtttt---gaagGTATTGCAAGTGCGAGATGCCTTATAACCCAGATGACCTCATGGTGCAGTGTGAGGGGTGCAAGGATTGGTAAAACCAGTATATTCTGCTTTTTTTTGTT
            |    || ||   || | |||    | ||  ||  |||  |||||    ||  | | |   ||  |||| ||  |  || || ||   || ||  ||||  ||||  |||||   |||| || |||||||| |||||||| || ||||| ||||| |||||||||||||| || |  |||||||| ||                               
gtatgcttgaatgctgattgttcatttcccgttccccagtgcaatgttggatttgttcaatttccatgggatgttagaatgttgattgctgattcgtctctgcttgtgttttctttttcgtttttctgaagATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTG-------------------------------

upper sequence: GLYMA13G34740.3 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G091265_T01 (Zea mays), 3'ss of exon 2
-----gtaagtttttttatttctgt---ttttactgagataatggtg---ttgtttgtgttttaagtgtttgaaatggtgggttttgttttgttgatttagtttggttttgtgttt---tgaagGTATTGCAAGTGCGAGATGCCTTATAACCCAGATGACCTCATGGTGCAGTGTGAGGGGTGCAAGGATTGGTAAAACCAGTATATTCTGCTTTTTTTTGTT
       ||| | ||   |||||||    |||  | |  |  ||||      |||||| || |   || ||   |||    ||    ||||  |||| |  | ||   |||| | |   ||||| ||||||||||| |||||||| || ||||| ||||||||||||||||||||||| || |||||||| ||                               
gtgtacaaagctcttccttttctgtaaccttttgtcatgtggtggttaatcagtttgtattatttttgcttctgatgtaatgtgggatttt--tgatcttatgtgacattgtttgtatgtgaagatattgcaagTGTGAGATGCCGTACAACCCGGATGACCTCATGGTGCAGTGTGAAGGATGCAAGGACTG-------------------------------

upper sequence: GLYMA13G34740.3 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G091265_T05 (Zea mays), 3'ss of exon 2
---gtaagtttttttatttctgt----ttttac--tgagataatggtgttgtttgtgttttaagtgtttgaaatggtgggttttgttttgttgatttagtttggttttgtgttt---tgaagGTATTGCAAGTGCGAGATGCCTTATAACCCAGATGACCTCATGGTGCAGTGTGAGGGGTGCAAGGATTGGTAAAACCAGTATATTCTGCTTTTTTTTGTT
     ||| | ||   |||||||    ||||    || | |  |      |||||| || |   || ||   |||    ||    ||||  |||| |  | ||   |||| | |   ||||| ||||||||||| |||||||| || ||||| ||||||||||||||||||||||| || |||||||| ||                               
gtacaaagctcttccttttctgtaaccttttgtcatgtggtggttaatcagtttgtattatttttgcttctgatgtaatgtgggatttt--tgatcttatgtgacattgtttgtatgtgaagATATTGCAAGTGTGAGATGCCGTACAACCCGGATGACCTCATGGTGCAGTGTGAAGGATGCAAGGACTG-------------------------------

upper sequence: GLYMA13G34740.3 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM5G871463_T02 (Zea mays), 3'ss of exon 2
--gtaagtttttttatttctgtttttactgagataatggtgttgtttgtgttttaagtgtttgaaatggtgggttttgttttgttgatttagtttggttttgtgttttgaagGTATTGCAAGTGCGAGATGCCTTATAACCCAGATGACCTCATGGTGCAGTGTGAGGGGTGCAAGGATTGGTAAAACCAGTATATTCTGCTTTTTTTTGTT
   | |   |  | |   ||    || |||       | |||   || |  | |   ||      ||  |  | ||  || || |||||  ||| |  | | |  | | |||||||||||| || |||||||| || ||||| |||||||||||||||||||| || |  |||||| | ||                               
gtatgaagctcctcaacccttccattgctg-------gctgtcccttttactgtgcatgc-----atttttagcttgcttgtgatgattgggtt-gtctattttctctcaagGTATTGCAAATGTGAGATGCCGTACAACCCCGATGACCTCATGGTGCAGTGCGATGCTTGCAAGCACTG-------------------------------

upper sequence: GLYMA13G34740.3 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G119357_T01 (Zea mays), 3'ss of exon 2
--gtaagtttttttatttctgtttttactgagataatggtgttgtttgtgttttaagtgtttgaaatggtgggttttgttttgttgatttag-tttg-gttttgtgttttgaagGTATTGCAAGTGCGAGATGCCTTATAACCCAGATGACCTCATGGTGCAGTGTGAGGGGTGCAAGGATTGGTAAAACCAGTATATTCTGCTTTTTTTTGTT
         |  | | | || |  ||  |||  |  |    || | ||||  |   | ||||       || |  |  || || | |||| | | || || || |  | | |||||||||||| || |||||||| || ||||| |||||||||||||||||||| || |  |||||||| ||                               
gtacggagctcctcaatcctttcattgttgactttttc---ttctctgtgcat---gcgttt-------tgagcctgcttgtgataatttgggtgtgtgtatttttctctaaagGTATTGCAAATGTGAGATGCCATACAACCCGGATGACCTCATGGTGCAGTGCGAAGCTTGCAAGGACTG-------------------------------

upper sequence: GLYMA13G34740.3 (Glycine max), 3'ss of exon 2
lower sequence: AT4G22140.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaagtttttttatttctgtttttactgagataatggtgttgtttgtgttttaagtgtttgaaatggtgggttttgttttgttgatttagtttggttttgtgttttgaagGTATTGCAAGTGCGAGATGCCTTATAACCCAGATGACCTCATGGTGCAGTGTGAGGGGTGCAAGGATTGGTAAAACCAGTATATTCTGCTTTTTTTTGTT
||||||   |  ||         || | |||| |        |  |  || | | |   || |||        || |||   || | | | ||| | ||| ||| |||||||| ||||| || || |||||||| || ||||| || ||||||||||||||||| || ||||| || ||                               
gtaagtagataaatag-------taatcagatcagaac----tacgccttcttattacctggaatttccatgattttttatctgttgtgggttgttgttg-gttctgaagGTACTGCAAATGTGAAATGCCTTACAATCCAGACGATCTCATGGTGCAGTGTGAAGGCTGCAAAGACTG-------------------------------

upper sequence: GLYMA13G34740.3 (Glycine max), 3'ss of exon 2
lower sequence: Vv10s0116g00160.t01 (Vitis vinifera), 3'ss of exon 2
gtaagtttttttatttctgtttttactgagataatggtgttgtttgtgttttaa-gtgtttgaaatggtgggttttgttttgttgatttagtttggttttgtgttttgaagGTATTGCAAGTGCGAGATGCCTTATAACCCAGATGACCTCATGGTGCAGTGTGAGGGGTGCAAGGATTGGTAAAACCAGTATATTCTGCTTTTTTTTGTT
|| |||||    | ||    |||| |||   | ||| |     |  || || || ||  | | | | |||||        || ||| |   ||||  ||| ||| ||||||||||||||| |||||||||||||||||||||||||| || ||||| ||||| |||||||||||||| ||                               
gtgagtttg---agtt---gttttgctggattgatgat-----tgatgattgaatgtactggtattcgtggg-------ctgatgaatacttttgaattt-tgtattgaagGTATTGCAAATGCGAGATGCCTTATAACCCAGATGATCTTATGGTCCAGTGCGAGGGGTGCAAGGACTG-------------------------------

upper sequence: GLYMA13G34740.3 (Glycine max), 3'ss of exon 2
lower sequence: PP1S298_65V6.1 (Physcomitrella patens), 3'ss of exon 2
gtaagtttttttatttctgtttttactgagataatggtgttgtttgtgttttaagtgtttgaaatggtgggttttgttttgttgatttagtttggttttgtgttttgaagGTATTGCAAGTGCGAGATGCCTTATAACCCAGATGACCTCATGGTGCAGTGTGAGGGGTGCAAGGATTGGTAAAACCAGTATATTCTGCTTTTTTTTGTT
  |  | | | ||| | | | | ||   | || ||  | |  | ||||| ||  ||||||     | |  |  ||  |  |   ||     | |  |  |   |||| || ||||||||||||||||||||||| || || |||||| | ||||| || |||||    ||||| || ||                               
--atatatatatatatatatatatatatatatcatcttatcatgtgtgtgttt-gtgttt-----gttccgcattact--gaacatcaccatcgactccgctgtttgcagTTATTGCAAGTGCGAGATGCCTTACAATCCTGATGACTTGATGGTTCAATGTGAAATCTGCAAAGACTG-------------------------------

upper sequence: GLYMA13G34740.3 (Glycine max), 3'ss of exon 2
lower sequence: EFJ05369 (Selaginella moellendorffii), 3'ss of exon 2
gtaagtttttttatttctgtttttactgagataatggtgttgtttgtgttttaagtgtttgaaatggtgggttttgttttgttgatttagtttggttttgtgttttgaagGTATTGCAAGTGCGAGATGCCTTATAACCCAGATGACCTCATGGTGCAGTGTGAGGGGTGCAAGGATTGGTAAAACCAGTATATTCTGCTTTTTTTTGTT
                                  |    |||     | | | | |  ||| | |       | | || || |   ||  ||||| |||| |      ||||| |||||||||||||||||||| ||||| ||||| || |||||||||||||||| |||||| || ||                               
---------------------------------gtaagattgacaaagctctcact--ttggattct----ctatcttatgctctctttttttgggtttgcggaa-acagGTACTGCAAGTGCGAGATGCCTTACAACCCGGATGATCTTATGGTGCAGTGTGAGGAGTGCAAAGACTG-------------------------------

upper sequence: GLYMA13G34740.3 (Glycine max), 3'ss of exon 2
lower sequence: EFJ26805 (Selaginella moellendorffii), 3'ss of exon 2
gtaagtttttttatttctgtttttactgagataatggtgttgtttgtgttttaagtgtttgaaatggtgggttttgttttgttgatttagtttggttttgtgttttgaa--gGTATTGCAAGTGCGAGATGCCTTATAACCCAGATGACCTCATGGTGCAGTGTGAGGGGTGCAAGGATTGGTAAAACCAGTATATTCTGCTTTTTTTTGTT
                                            |  | || |      |   |   ||| || | | |  |    |   |||  ||||| ||||  ||  |||| |||||||||||||||||||| ||||| ||||| || |||||||||||||||| |||||| || ||                               
-------------------------------------------gtaagattgacaaagctctcactttggattctctatcttatgctctcttt--ttttgggtttgaaacagGTACTGCAAGTGCGAGATGCCTTACAACCCGGATGATCTTATGGTGCAGTGTGAGGAGTGCAAAGACTG-------------------------------

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|207771270|gb|GD746385.1|GD746385
EST:     TTTGAGTACAAAGCTGCCACTGGGGCTCTCACGCCTGACCGTGTTGCTGT                         GTATTGCAAGT
genomic: TTTGAGTACAAAGCTGCCACTGGGGCTTTCACGCCTGACCGTGTTGCTGTgtaagttttt ... tgttttgaagGTATTGCAAGT
EST: gi|213617855|gb|DB967273.1|DB967273
EST:     TTTGAGTACAAAGCTGCCACTGGGGCTTTCACGCCTGACCGTGTTGCTGT                         GTATTGCAAGTGCG
genomic: TTTGAGTACAAAGCTGCCACTGGGGCTTTCACGCCTGACCGTGTTGCTGTgtaagttttt ... tgttttgaagGTATTGCAAGTGCG
EST: gi|192317077|gb|FK007844.1|FK007844
EST:     TTTGAGTACAAAGCTGCCACTGGGGCTTTCACGCCTGACCGTGTTGCTGT                         GTATTGCAAGTGCGAGATGCCTTATAACCCAGATGACCTCATGGTGCAGTG
genomic: TTTGAGTACAAAGCTGCCACTGGGGCTTTCACGCCTGACCGTGTTGCTGTgtaagttttt ... tgttttgaagGTATTGCAAGTGCGAGATGCCTTATAACCCAGATGACCTCATGGTGCAGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttgaaatggtgggttttgttttgttgatttagtttggttttgtgttttgaagGTATTGCAAGTGCGAGATGCCTTATAACCCAGATGACCTCATGGTGCAGTGTGAGGGGTGCAAGGATTGGTAAAACCAGTATATTCTGCTTTTTTTTGTT
                        tgttgat  putative branch site (score: 4)
                ttttgtttt  TA-rich tract