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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgaacaaaactacttattgagatgattaaattttatcatcattgttggtgtgcttattcatttagttttgaatctgcagCGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTATTCAGTTTGTTGATGGTTTCTTTAGTCCAATATACTCCAGGCTCGGGATA

Basic information

species Glycine max
transcript GLYMA04G39490.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G39490.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os05g36110.4 (Oryza sativa), 3'ss of exon 2
---------gtaatgaacaaaacta--cttattgagatgattaaattttatcatcattgttggtgtgcttattcatttagttttgaatctgcagCGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTATTCAGTTTGTTGATGGTTTCTTTAGTCCAATATACTCCAGGCTCGGGATA
          | |  ||  || |||  | |||    |    ||||  ||||   ||    |  |   ||  || ||     |||  || ||||||||||||||||| || ||||||||||| |||||||| || ||||||||| || ||||||||||||| || || |||||| | ||  | | ||| ||  | 
gtatgttttttcaacaattaatctagacatatcacaagagctaaagattatatccaagcctattaacctgttttatccctcttttgatttgcagCGTAGTTCTTTTCCCTGTTGCTGTTACATTCTTCATCACCTGGTGGTTTGTTAAGTTTGTTGATGGATTTTTCAGTCCACTGTATGCAAAGCTTGGATTT

upper sequence: GLYMA04G39490.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os01g64780.4 (Oryza sativa), 3'ss of exon 2
----------gtaatgaacaaaactacttattgagatgattaaattttatcatcattgttggtgtgcttattcatttagttttgaatctgcagCGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTATTCAGTTTGTTGATGGTTTCTTTAGTCCAATATACTCCAGGCTCGGGATA
          |  | |||| ||  ||   ||       |  |||   ||  |          ||| ||| |||  ||  ||||   | |||||||| ||||| ||||| |||||||| || |||||||| ||||||||||||||||| ||||||||||| || || || ||| ||||  | |  || ||||| 
gtacatctttgacaggaaccaagttaagcatgttaccaaacaaaaagtaaaaaatcatgcattgttcttcttccctttttttt---tttgcagCGTCGTTCTGTTTCCTGTTGCTGTCACGTTCTTCATCACATGGTGGTTTATTCAATTTGTTGATGGCTTTTTCAGCCCACTATATGCAAAACTTGGGATC

upper sequence: GLYMA04G39490.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G048150_T04 (Zea mays), 3'ss of exon 2
---------gtaatgaacaaaactact-tattgagatgattaaattttatcatcattgttggtgtgcttattcatttagttttgaatctgcagCGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTATTCAGTTTGTTGATGGTTTCTTTAGTCCAATATACTCCAGGCTCGGGATA
           || || |||  |   |   |||   ||| || | | ||||     |  |    || ||   |       ||||  ||||||| ||||||||||| ||| ||||||| || |||||| | || |||||||||||||| |||||||||||||| || || ||| | ||  | |  || ||| | 
gtatgcttcacaaggaccaattcagatactttgcagtgactacaatatatctatgctaatatcctgttttggctgcctactttgtctctgcagTGTAGTTCTTTTCCCAATTGCTGTCACATTCTTCCTCACGTGGTGGTTTATTCAATTTGTTGATGGTTTTTTCAGCCCACTCTATGCAAAACTGGGGTTT

upper sequence: GLYMA04G39490.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G149662_T01 (Zea mays), 3'ss of exon 2
-----------gtaatgaacaaaact--acttattgagatgattaaattttatcatcattgttggtgtgcttattcatttagttttgaatctgcagCGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTATTCAGTTTGTTGATGGTTTCTTTAGTCCAATATACTCCAGGCTCGGGATA
             || |||   | ||  || | |||  ||   ||  | |     | |||  ||       ||||  ||  |||||   | ||||| ||||| |||||||| ||||| || || |||||||| ||||||||||||||||| ||||||||||| || || |||||  ||||  | |   | || || 
gtacacccttcacaa-gaattgagctaaacctgttgccatatctatgtataccttttatttatgcctgatctatttcttgtgttttatgtatgcagTGTAGTCCTTTTTCCTGTTGCAGTCACGTTCTTCATCACATGGTGGTTTATTCAATTTGTTGATGGGTTTTTCAGTCCCCTATATGCAAAAATTGGAATC

upper sequence: GLYMA04G39490.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G052855_T01 (Zea mays), 3'ss of exon 2
-----------------gtaatgaacaaaact-acttattgagatgatta-aattttatcat--cattgttggtgtgcttattcattta---gttttgaatctgcagCGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTATTCAGTTTGTTGATGGTTTCTTTAGTCCAATATACTCCAGGCTCGGGATA
                   |||||  ||  |  ||   |||  |||  || || |  |  ||     || |  | |  |  ||  | |      |||   | ||||| ||||||||||| ||| ||||||| || |||||||| || ||||||||||| || |||||||||||||| || || ||| | ||  | |  || ||| | 
gtatgcttcacaagttcacaatgactaattcagacactttgcaatggctacaactacaatatattgatgctaatatcttcttttgtctccctactttttctttgcagTGTAGTTCTTTTGCCAATTGCTGTCACATTCTTCATCACTTGGTGGTTTATCCAATTTGTTGATGGTTTTTTCAGCCCACTCTATGCAAAACTGGGGTTT

upper sequence: GLYMA04G39490.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G046098_T02 (Zea mays), 3'ss of exon 2
-----------gtaatgaacaaaact--acttattgagatgattaaattttatcatcattgttggtgtgct-tattcatttagttttgaatctgcagCGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTATTCAGTTTGTTGATGGTTTCTTTAGTCCAATATACTCCAGGCTCGGGATA
             ||| |||  | ||  || | |||  ||   || || | | | |   |||  |  || | ||||  ||  |||||   ||||||| ||||| ||||| || ||||| || || |||||||| ||||||||||||||||| ||||||||||| || || |||||  ||||  | |  || || || 
gtacgcccttcacaat-aactgagctaaacatgttgccatagctatatat-accttttatgtatgcatgatatatttcttgtgttttatgtctgcagTGTAGTCCTTTTCCCTGTTGCAGTCACGTTCTTCATCACATGGTGGTTTATTCAATTTGTTGATGGGTTTTTCAGTCCCCTATATGCAAAACTTGGAATC

upper sequence: GLYMA04G39490.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G046098_T04 (Zea mays), 3'ss of exon 2
-----------gtaatgaacaaaacta--cttattgagatgattaaattttatcatcattgttggtgtgct-tattcatttagttttgaatctgcagCGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTATTCAGTTTGTTGATGGTTTCTTTAGTCCAATATACTCCAGGCTCGGGATA-----
             ||| |||  | |||  | | |||  ||   || || | | | |   |||  |  || | ||||  ||  |||||   ||||||| ||||| ||||| || ||||| || || |||||||| ||||||||||||||||| ||||||||||| || || |||||  ||||  | |  || || ||      
gtacgcccttcacaat-aactgagctaaacatgttgccatagctatatat-accttttatgtatgcatgatatatttcttgtgttttatgtctgcagtgtagTCCTTTTCCCTGTTGCAGTCACGTTCTTCATCACATGGTGGTTTATTCAATTTGTTGATGGGTTTTTCAGTCCCCTATATGCAAAACTTGGAATCAACAT

upper sequence: GLYMA04G39490.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv07s0031g02010.t01 (Vitis vinifera), 3'ss of exon 2
gtaatgaacaaaactacttattgagatgat-taaat-ttta-----tcatcattgttggtgtgctta---ttcatttagttttgaatctgcagCGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTATTCAGTTTGTTGATGGTTTCTTTAGTCCAATATACTCCAGGCTCGGGATA
|||||   |  | |||    || | ||  | || || ||||     |  | ||| ||     || ||   || | ||  |||||||  ||||| || ||||||||||||||||| ||||| || ||  |||||||||||||||||||||| |||||||||||||| |||||| ||||     |||| || || 
gtaatatgcttacctatgccttaatatattctagatgtttactcattttttattattttccagcctaacattgagttgattttgaaattgcagTGTTGTTCTTTTTCCAGTTGCAGTTACATTTTTTGTTACATGGTGGTTTATTCAGTTCGTTGATGGTTTCTTCAGTCCATTATATGAACGGCTTGGCATC

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|254330499|gb|GR841764.1|GR841764
EST:     TGCTGCTTTGTTCTCCAGAGTTGGGTCTCTAAGAAATTTATGACTGGATG                         CGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTAT
genomic: TGCTGCTTTGTTCTCCAGAGTTGGGTCTCTAAGAAATTTATGACTGGATGgtaatgaaca ... gaatctgcagCGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTAT
EST: gi|9901349|gb|BE610317.1|BE610317
EST:     TGCTGCTTTGTTCTCCAGAGTTGGGTCTCTAAGAAATTTATGACTGGATG                         CGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTAT
genomic: TGCTGCTTTGTTCTCCAGAGTTGGGTCTCTAAGAAATTTATGACTGGATGgtaatgaaca ... gaatctgcagCGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTAT
EST: gi|9564106|gb|BE473615.1|BE473615
EST:     TGCTGCTTTGTTCTCCAGAGTTGGGTCTCTAAGAAATTTATGACTGGATG                         CGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTAT
genomic: TGCTGCTTTGTTCTCCAGAGTTGGGTCTCTAAGAAATTTATGACTGGATGgtaatgaaca ... gaatctgcagCGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTAT
EST: gi|22523553|gb|BU082355.1|BU082355
EST:     TGCTGCTTTGTTCTCCAGAGTTGGGTCTCTAAGAAATTTATGACTGGATG                         CGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTAT
genomic: TGCTGCTTTGTTCTCCAGAGTTGGGTCTCTAAGAAATTTATGACTGGATGgtaatgaaca ... gaatctgcagCGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTAT
EST: gi|151407101|gb|EV276916.1|EV276916
EST:     TGCTGCTTTGTTCTCCAGAGTTGGGTCTCTAAGAAATTTATGACTGGATG                         CGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTAT
genomic: TGCTGCTTTGTTCTCCAGAGTTGGGTCTCTAAGAAATTTATGACTGGATGgtaatgaaca ... gaatctgcagCGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTAT
EST: gi|8284138|gb|BE021697.1|BE021697
EST:     TGCTGCTTTGTTCTCCAGAGTTGGGTCTCTAAGAAATTTATGACTGGATG                         CGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTAT
genomic: TGCTGCTTTGTTCTCCAGAGTTGGGTCTCTAAGAAATTTATGACTGGATGgtaatgaaca ... gaatctgcagCGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTAT
EST: gi|151397141|gb|EV267014.1|EV267014
EST:     TGCTGCTTTGTTCTCCAGAGTTGGGTCTCTAAGAAATTTATGACTGGATG                         CGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTAT
genomic: TGCTGCTTTGTTCTCCAGAGTTGGGTCTCTAAGAAATTTATGACTGGATGgtaatgaaca ... gaatctgcagCGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTAT
EST: gi|151405159|gb|EV274973.1|EV274973
EST:     TGCTGCTTTATTCTCCAGAGTTGGGTCTCTAAGAAATTTATGACTGGATG                         CGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTAT
genomic: TGCTGCTTTGTTCTCCAGAGTTGGGTCTCTAAGAAATTTATGACTGGATGgtaatgaaca ... gaatctgcagCGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTAT
EST: gi|31561519|gb|CD487357.1|CD487357
EST:     TGCTGCTTTGTTCTCCAGAGTTGGGTCTCTAAGAAATTTTTGACTGGATG                         CGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTAT
genomic: TGCTGCTTTGTTCTCCAGAGTTGGGTCTCTAAGAAATTTATGACTGGATGgtaatgaaca ... gaatctgcagCGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attaaattttatcatcattgttggtgtgcttattcatttagttttgaatctgcagCGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTATTCAGTTTGTTGATGGTTTCTTTAGTCCAATATACTCCAGGCTCGGGATA
                             ttattcatttagtttt  TA-rich tract