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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gattaatgaatctgtatggaaataagtaattaagtactatttgcttttgtcaagttcggtaatttgcagttctgagccccttttcctttgtcaattttagTTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCCCGATTTATGATGTTGCGGCGATACTTACCTCAATTCAG

Basic information

species Glycine max
transcript GLYMA02G02400.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G02400.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G110983_T02 (Zea mays), 3'ss of exon 3
gattaatgaatctgtatggaaataagtaattaagtactatttgcttttgtcaagttcggtaatttgcagttctgagccccttttcctttgtcaattttagTTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCCCGATTTATGATGTTGCGGCGATACTTACCTCAATTCAG
                   || ||  | ||   ||||||| | ||  || | | ||   |    ||     ||||     || || | ||        ||||||||| |||||||||||||| || || ||  | || ||||| ||||| ||||| |||||||| || |||||||| || ||||| |||
---------------tcttaactatatgat--ggtactatcttctaatgcccacttatatg---tgtcaccctgacatttttctcatatgc-------agtttatgctgatggaagcatatgcttagATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAG

upper sequence: GLYMA02G02400.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G110983_T03 (Zea mays), 3'ss of exon 2
gattaatgaatctgtatggaaataagtaattaagtactatttgcttttgtcaagttcggtaatttgcagttctgagccccttttcc---tttgtcaattttagTTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCCCGATTTATGATGTTGCGGCGATACTTACCTCAATTCAG
  |         | |   || | || |   | |  ||||| || |  |   |  |||         |   | || | | |  |  |   ||| |||  |  ||||||||| |||||||||||||| || || ||  | || ||||| ||||| ||||| |||||||| || |||||||| || ||||| |||
-ctcctctggcttattctgatacaactctctta--actatatgatggtactatcttctaatgcccacttatatgtgtcaccctgacatttttctcatatgcagTTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAG

upper sequence: GLYMA02G02400.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv01s0026g01770.t01 (Vitis vinifera), 3'ss of exon 5
gattaatgaatctgtatggaaataagtaattaagtactatttgcttttgtcaagttcggtaat---ttgcagttctgagcccct--tttcctttgtcaatt-ttagTTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCCCGATTTATGATGTTGCGGCGATACTTACCTCAATTCAG
     ||||   || ||    ||||    || ||   | ||||        ||  |  ||| |   |||| |||    || |    ||  |||  ||  || | ||||||||| ||||||||||| || || |||||| |||||||||| ||||| || ||||||||||| || || |||||||| || || |||
----catgatgatg-atcatcataatgtttttagcttt-tttgaggaaactaaactaagtattattttgctgttgctggctctaagttctcttaatcttttgtcagTTTATGCGGATGGAAGCATTTGCTTAGACATTCTACAAAATCAGTGGAGTCCAATTTATGATGTAGCTGCCATACTTACATCCATCCAG

upper sequence: GLYMA02G02400.1 (Glycine max), 3'ss of exon 4
lower sequence: EFJ17802 (Selaginella moellendorffii), 3'ss of exon 3
gattaatgaatctgtatggaaataagtaattaagtactatttgcttttgtcaagttcggtaatttgcagttctgagccccttttcctttgtcaattttagTTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCCCGATTTATGATGTTGCGGCGATACTTACCTCAATTCAG
                                      | |  ||||  ||   |||  |||||| |  || |     | |  || | | |   ||  ||||||||| |||||||| || ||  | |||||  | |||||||||||||| ||||| || ||||||||||| || ||||| || || |||
-----------------------------------gtgagtccctttcttct--ttctttaattttctttttt----tcttactcatcttt---ttgcagTTTATGCTGATGGAAGTATTTGCCTCGACATACTGCAAAATCAATGGAGTCCGATCTACGATGTTGCGGCAATTCTTACGTCCATACAG

upper sequence: GLYMA02G02400.1 (Glycine max), 3'ss of exon 4
lower sequence: EFJ21576 (Selaginella moellendorffii), 3'ss of exon 3
gattaatgaatctgtatggaaataagtaattaagtactatttgcttttgtcaagttcggtaatttgcagt-tctgagccccttttcctttgtcaattttagTTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCCCGATTTATGATGTTGCGGCGATACTTACCTCAATTCAG
                                                   ||||||| | ||| | ||| |||     ||||   |  | ||      ||||||||| ||||||||||| ||| | |||||  | |||||||| ||||||||||| ||||||||||| || ||||| || || || |||
-------------------------------------------------gtaagttcgtttattcgtagtgtctatcttccttacgcgctctcg----cagTTTATGCCGATGGAAGCATTTGTCTCGACATCCTCCAAAATCAGTGGAGCCCGATCTATGATGTTGCCGCAATACTGACATCGATCCAG

upper sequence: GLYMA02G02400.1 (Glycine max), 3'ss of exon 4
lower sequence: EFJ23951 (Selaginella moellendorffii), 3'ss of exon 3
gattaatgaatctgtatggaaataagtaattaagtactatttgcttttgtcaagttcggtaatttgcagt-tctgagccccttttcctttgtcaattttagTTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCCCGATTTATGATGTTGCGGCGATACTTACCTCAATTCAG
                                                   ||||||| | ||| | ||| |||     ||||   |  | ||      ||||||||| ||||||||||| ||| | |||||  | |||||||| ||||||||||||||||||||||| || ||||| || || || |||
-------------------------------------------------gtaagttcgtttattcgtagtgtctatcttccttacgcgctctcg----cagTTTATGCCGATGGAAGCATTTGTCTCGACATCCTCCAAAATCAGTGGAGCCCGATTTATGATGTTGCCGCAATACTGACATCGATCCAG

upper sequence: GLYMA02G02400.1 (Glycine max), 3'ss of exon 4
lower sequence: EFJ16328 (Selaginella moellendorffii), 3'ss of exon 3
gattaatgaatctgtatggaaataagtaattaagtactatttgcttttgtcaagttcggtaatttgcagttctgagccccttttcctttgtcaattt-tagTTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCCCGATTTATGATGTTGCGGCGATACTTACCTCAATTCAG
                                          |    |  |  | |   |  ||||   ||||   |   || |   |  ||  ||   ||||||||| |||||||| || ||  | |||||| | |||||||||||||| ||||| || ||||||||||| || ||||| || || |||
------------------------------------------gtgagtcccttgcttctttctttgagtttctt--ctttttcttactcatctcttcgcagTTTATGCTGATGGAAGTATTTGCCTCGACATTCTGCAAAATCAATGGAGTCCGATCTACGATGTTGCGGCAATTCTTACGTCCATACAG

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|22541678|gb|BU091521.1|BU091521
EST:     TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACA                         TTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
genomic: TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACAgtaagtagga ... tcaattttagTTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
EST: gi|15337304|gb|BI497960.1|BI497960
EST:     TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACA                         TTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
genomic: TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACAgtaagtagga ... tcaattttagTTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
EST: gi|192329123|gb|FK019738.1|FK019738
EST:     TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACA                         TTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
genomic: TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACAgtaagtagga ... tcaattttagTTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
EST: gi|192330836|gb|FK021609.1|FK021609
EST:     TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACA                         TTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
genomic: TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACAgtaagtagga ... tcaattttagTTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
EST: gi|298164392|gb|HO014037.1|HO014037
EST:     TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACA                         TTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
genomic: TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACAgtaagtagga ... tcaattttagTTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
EST: gi|298180824|gb|HO022263.1|HO022263
EST:     TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACA                         TTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
genomic: TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACAgtaagtagga ... tcaattttagTTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
EST: gi|11413307|gb|BF425318.1|BF425318
EST:     TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACA                         TTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
genomic: TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACAgtaagtagga ... tcaattttagTTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
EST: gi|298178672|gb|HO024407.1|HO024407
EST:     TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACA                         TTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
genomic: TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACAgtaagtagga ... tcaattttagTTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
EST: gi|151394718|gb|EV264589.1|EV264589
EST:     TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACA                         TTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
genomic: TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACAgtaagtagga ... tcaattttagTTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
EST: gi|298179938|gb|HO025153.1|HO025153
EST:     TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACA                         TTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
genomic: TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACAgtaagtagga ... tcaattttagTTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
EST: gi|192310693|gb|FK001117.1|FK001117
EST:     TTTGTTTCTCAAATGTTTCATCCCAACA                         TTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
genomic: TTTGTTTCTCAAATGTTTCATCCCAACAgtaagtagga ... tcaattttagTTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
EST: gi|151405335|gb|EV275149.1|EV275149
EST:     TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACA                         TTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
genomic: TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACAgtaagtagga ... tcaattttagTTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
EST: gi|254334254|gb|GR849172.1|GR849172
EST:     TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACA                         TTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
genomic: TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACAgtaagtagga ... tcaattttagTTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
EST: gi|298175146|gb|HO014949.1|HO014949
EST:     TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACA                         TTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
genomic: TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACAgtaagtagga ... tcaattttagTTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
EST: gi|5509647|gb|AI856205.1|AI856205
EST:     TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACA                         TTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC
genomic: TAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACAgtaagtagga ... tcaattttagTTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgtcaagttcggtaatttgcagttctgagccccttttcctttgtcaattttagTTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCCCGATTTATGATGTTGCGGCGATACTTACCTCAATTCAG
                               ccccttttcctttgtc  CT-rich tract
                                             tcaatttta  TA-rich tract