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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggcttggttgatatctttctgttcttagtttttaaattttttagttattcaacaagtacaataaaacattggaacaatatgtgatagtacgcttgtctaatcagGTCATTGTTGCTGACAACTTCTTCACTGGATCTAAAGACAACCTTAAAAAATGGATTGGCCATCCAAGATTCGAGCTAATTCGTCATG

Basic information

species Glycine max
transcript GLYMA12G06980.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G06980.3 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os03g16980.4 (Oryza sativa), 3'ss of exon 3
gttggcttggttgatatctttctgtt-cttagtttttaaattttttagttattcaacaagtacaataaaacattggaacaatatgtgatagtacgcttgtctaatcagGTCATTGTTGCTGACAACTTCTTCACTGGATCTAAAGACAACCTTAAAAAATGGATTGGCCATCCAAGATTCGAGCTAATTCGTCATG
|| |   |     || |     |||| | | || |      ||   || | || | |    | | |       |   |  || |||         ||| |||  |||||||||||| || |||||||| |||||||| || ||||||||||| || || ||||| || || |||||||| |||||||| |||||||
gtagaactcaacaatgttgcattgttgccttgtgtgactgcttggcagatttttagctgagaaagtgcgggcctttgatcatgtgtt--------cttttctgttcagGTCATTGTCGCAGACAACTTTTTCACTGGTTCAAAAGACAACCTGAAGAAGTGGATCGGACACCCAAGATTTGAGCTAATCCGTCATG

upper sequence: GLYMA12G06980.3 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G165357_T02 (Zea mays), 3'ss of exon 2
gttggcttggttga-tatctttctgttcttagtttttaaattttttagttattcaacaagtacaataaaacattggaacaatatgtgatagtacgcttgtctaatcagGTCATTGTTGCTGACAACTTCTTCACTGGATCTAAAGACAACCTTAAAAAATGGATTGGCCATCCAAGATTCGAGCTAATTCGTCATG
    |   ||||||  | |  |    |  |||  | ||   | |   | |||    |  ||     | |   || | |   |    ||   |   ||| |    |||||||||||||||||| ||||| |||||||| || ||||||||||| || || ||||||||||| |||||||| ||||| || |||||||
----gtggggttgagcaaccattgaattctagggtctatgctatcatgctatgggtcttgtcttgcagacattttggatgtt----gactttgttcttttacgttcagGTCATTGTTGCTGATAACTTTTTCACTGGTTCAAAAGACAACCTGAAGAAGTGGATTGGCCACCCAAGATTTGAGCTCATCCGTCATG

upper sequence: GLYMA12G06980.3 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G044027_T02 (Zea mays), 3'ss of exon 3
gttggcttggttgatatctttctgttcttagtttttaaattttttagttattcaacaagtacaataaa-acattggaacaatatgtgatagtacgcttgtctaatcagGTCATTGTTGCTGACAACTTCTTCACTGGATCTAAAGACAACCTTAAAAAATGGATTGGCCATCCAAGATTCGAGCTAATTCGTCATG
 | || |||  ||        |     ||    | ||   |  || | |||    |  |      | | |  |||||    | | |||   |   ||| |   ||||||||||||||||||| ||||| |||||||| || ||||| ||||| || || ||||| || || |||||||| ||||| || || ||||
ctaggtttg--tggggctgagcaaacattgaaatctagggtcctt-gctatgggtcttgccttgcagacatgttgga----tgt-tgactttgttcttttacgatcagGTCATTGTTGCTGATAACTTTTTCACTGGTTCAAAAGATAACCTGAAGAAGTGGATCGGACACCCAAGATTTGAGCTCATCCGCCATG

upper sequence: GLYMA12G06980.3 (Glycine max), 3'ss of exon 3
lower sequence: AT3G46440.1 (Arabidopsis thaliana), 3'ss of exon 3
gttggcttggttgatatctttctgttcttagtttttaaattttttagttattcaacaagtaca-ataaaacattggaacaatatgtgatagt-acgcttgtcta-atcagGTCATTGTTGCTGACAACTTCTTCACTGGATCTAAAGACAACCTTAAAAAATGGATTGGCCATCCAAGATTCGAGCTAATTCGTCATG
                           || |  || |||||  |     || ||| |       ||     ||| ||  ||    ||||  | |   || | |  | ||||| ||||||||||| ||||  |||||||| || || ||||||||||| || |||||||| ||||||||||| ||||| || ||||| |
--------------------------gtttgcattgaaattcctatccgatacaatagtagtttatgcgcgatttgattaagtactgatgtttatatttttttttaccagGTGATTGTTGCTGATAACTATTTCACTGGTTCAAAGGACAACCTTAAGAAGTGGATTGGTCATCCAAGATTTGAGCTTATCCGTCACG

upper sequence: GLYMA12G06980.3 (Glycine max), 3'ss of exon 3
lower sequence: Vv06s0004g04390.t01 (Vitis vinifera), 3'ss of exon 3
--------------------------------------------gttggcttggttgatatctttc-tgttcttagtttttaaattttttagtt-attcaacaagtacaataaaacattggaacaatatgtgatagtacgcttgtctaatcagGTCATTGTTGCTGACAACTTCTTCACTGGATCTAAAGACAACCTTAAAAAATGGATTGGCCATCCAAGATTCGAGCTAATTCGTCATG
                                            | |  ||   | |    |     | |      |  | | ||     || | | |  | |  |||  ||  | |     |   | | ||||| ||   ||   |  | |||| |||||||| || |||| |||||| || ||||| ||||| || || ||||||||||| ||||||||||| ||||| ||||||||||
gttagcatggttttttcatcttatccagtctcactttctgtgctgattactgaataggcgacaaaaatataaaccataatcatatgcagcagctgacttcatacatactgtatgataagaagatcgtgtttgataatagttttacttccttagGTAATTGTTGCCGATAACTACTTCACCGGTTCTAAGGACAATCTCAAGAAATGGATTGGTCATCCAAGATTTGAGCTTATTCGTCATG

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|209703509|gb|BW656547.1|BW656547
EST:     TTATTGGCTCTCACCTAGTTGACAAATTGATGGAAAATGAAAAAAGTGAG                         GTCATTGTTGCTGACAACTTCTTCACTGGATCTAAAGACAACCTTAAAAAA
genomic: TTATTGGCTCTCACCTAGTTGACAAATTGATGGAAAATGAAAAAAATGAGgttggcttgg ... gtctaatcagGTCATTGTTGCTGACAACTTCTTCACTGGATCTAAAGACAACCTTAAAAAA
EST: gi|192298392|gb|FG989143.1|FG989143
EST:     TTATTGGCTCTCACCTAGTTGACAAATTGATGGAAAATGNNNNNNNTGAG                         GTCATTGTTGCTGACAACTTCTTCACTGGATCTAAAGACAACCTTAAAAAA
genomic: TTATTGGCTCTCACCTAGTTGACAAATTGATGGAAAATGAAAAAAATGAGgttggcttgg ... gtctaatcagGTCATTGTTGCTGACAACTTCTTCACTGGATCTAAAGACAACCTTAAAAAA
EST: gi|207697729|gb|GD681214.1|GD681214
EST:     TTATTGGCTCTCACCTAGTTGACAAATTGATGGAAAATGAAAAAA-TGAG                         GTCATTGTTGCTGACAACTTCTTCACTGGATCTAAAGACAACCTTAAAAA-
genomic: TTATTGGCTCTCACCTAGTTGACAAATTGATGGAAAATGAAAAAAATGAGgttggcttgg ... gtctaatcagGTCATTGTTGCTGACAACTTCTTCACTGGATCTAAAGACAACCTTAAAAAA
EST: gi|192330026|gb|FK020842.1|FK020842
EST:     TTATTGGCTCTCACCTAGTTGACAAATTGATGGAAAATGNNNNNNNTGAG                         GTCATTGTTGCTGACAACTTCTTCACTGGATCTAAAGACAACCTTAAAAAA
genomic: TTATTGGCTCTCACCTAGTTGACAAATTGATGGAAAATGAAAAAAATGAGgttggcttgg ... gtctaatcagGTCATTGTTGCTGACAACTTCTTCACTGGATCTAAAGACAACCTTAAAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caacaagtacaataaaacattggaacaatatgtgatagtacgcttgtctaatcagGTCATTGTTGCTGACAACTTCTTCACTGGATCTAAAGACAACCTTAAAAAATGGATTGGCCATCCAAGATTCGAGCTAATTCGTCATG
                                          cttgtct  CT-rich tract
       tacaataaaacatt  TA-rich tract