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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatctatgatggatacattatatagggtctatagttgcatcttttaagggcataatgtgtattcagtttactagtctaaggtgcaagattttgttgtccatggcctctcaattttctgctacttgattgtgaaatttgtgctttggattttacttctataattagcatccttatgtgttgtagGTGGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGATGAATATTGGAAAAAGTCAAAGTTGCCTCATGCTACCATTTTTAAGCCCCAAC

Basic information

species Glycine max
transcript GLYMA15G10470.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G10470.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os07g47180.1 (Oryza sativa), 3'ss of exon 3
gtaatctatgatggatacattatatagggtctatagttgcatcttttaagggcataatgtgtattcagtttactagtctaaggtgcaagattttgttgtccatggcctctcaattttctgctacttgattgtgaaatttgtgctttggattttacttctataattagcatccttatgtgttgtagGTGGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGATGAATATTGGAAAAAGTCAAAGTTGCCTCATGCTACCATTTTTAAGCCCCAAC
                                                                                        |  |||  |||  |||  || | | |       ||  | |   |     || | | |   ||| |  |  | ||||||   |  ||     || |||||||| ||||| || || || || ||  | |||||||| ||  | || |||||||||||||| || |||||||||||||| || || || ||||||||||
-----------------------------------------------------------------------------------caactgtgtttaatgtt-atgtacttttagtcaaaacgtatattaacattttccttct-catgatattctgttgttttaattatgtttttttatccttttagGTGGAACAGCTGCATAAAATTTTTAAGTTGTGTGGTTCCCCCACAGAAGAATATTGGAAAAAATCGAAGTTGCCTCATGCAACTATATTCAAGCCCCAAC

upper sequence: GLYMA15G10470.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g27020.2 (Oryza sativa), 3'ss of exon 3
gtaatctatgatggatacattatatagggtctatagttgcatcttttaagggcataatgtgtattcagtttactagtctaaggtgcaagattttgttgtccatggcctctcaattttctgctacttgattgtgaaatttgtgctttggattttacttctataattagcatccttatgtgttgtagGTGGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGATGAATATTGGAAAAAGTCAAAGTTGCCTCATGCTACCATTTTTAAGCCCCAAC
                                                                                   |    | |||| |  |   | ||     |   ||  | | |||     | |||||  |        || || || ||  ||  |||   | |  || |  |||| || ||| | |||||||| ||||| |||||||| || || || || || |||||||||||||| ||| |||| |||||||| || || || || || |
---------------------------------------------------------------------------------atttattgtttttatcttgtgttgctatatatgctttagttgctta--cataaaattgat-tgccattttctaattttaatatgtgcaatatgaactgat-cagGTAGAACAGTTGCACAAGATTTTCAAGCTATGTGGCTCCCCCTCAGAGGAGTATTGGAAAAAGTCCAAGCTGCCACATGCTACAATATTCAAACCTCAGC

upper sequence: GLYMA15G10470.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G333433_T01 (Zea mays), 3'ss of exon 3
gtaatctatgatggatacattatatagggtctatagttgcatcttttaagggcataatgtgtattcagtttactagtctaaggtgcaagattttgttgtccatggcctctcaattttctgctacttgattgtgaaatttgtgctttggattttacttctataattagcatccttatgtgttgtagGTGGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGATGAATATTGGAAAAAGTCAAAGTTGCCTCATGCTACCATTTTTAAGCCCCAAC
                                                                       |    | | ||        | |  |||| ||  |  | | | ||      | |||   | ||| ||||    ||     |||  || | |            | ||| || |||||||| ||||| || || || || || |||||||| |||||  | || |||||||||||||| ||||||||||||||||| || || |||||||||||||
----------------------------------------------------------------------cagacatttcagtgatggtctatgtttgttcacagtttttaatttcatcaattcttttctatgatatttccatttg----tttgattgtgtg-----------tctgtcttctagGTGGAACAGCTGCATAAAATTTTTAAGCTATGTGGCTCTCCGACAGAAGAATATTGGAAAAAATCAAAGTTGCCTCATGCAACTATATTTAAGCCCCAAC

upper sequence: GLYMA15G10470.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM5G873277_T01 (Zea mays), 3'ss of exon 3
gtaatctatgatggatacattatatagggtctatagttgcatcttttaagggcataatgtgtattcagtttactagtctaaggtgcaagattttgttgtccatggcctctcaattttctgctacttgattgtgaaatttgtgctttggattttacttctataattagcatccttatgtgttgtagGTGGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGATGAATATTGGAAAAAGTCAAAGTTGCCTCATGCTACCATTTTTAAGCCCCAAC
                                                                              | ||       | |  ||  |   |    || |||||||    |  | | |  |    ||    | |   |||||  || | | ||| |      | ||| ||  ||||||| ||||| || || || || || |||||||| |||||  |||| |||||||||||||| ||||||||||| ||||| || || |||||||| ||||
-----------------------------------------------------------------------------ttcagacagtttagtaggtcatatgttcagtcacaatttttattt--tcggtcattgctttc---catgatattttctttttttgattggg---tgtttgtctttcagGTGGAACAGCTGCATAAAATTTTTAAGCTATGTGGCTCTCCGACTGAAGAATATTGGAAAAAATCAAAGTTGCCCCATGCAACTATATTTAAGCCTCAAC

upper sequence: GLYMA15G10470.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G156251_T01 (Zea mays), 3'ss of exon 3
gtaatctatgatggatacattatatagggtctatagttgcatcttttaagggcataatgtgtattcagtttactagtctaaggtgcaagattttgttgtccatggcctctcaattttctgctacttgattgtgaaatttgtgctttggattttacttctataattagcatcctta-tgtgttgtagGTGGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGATGAATATTGGAAAAAGTCAAAGTTGCCTCATGCTACCATTTTTAAGCCCCAAC
                                                                             ||  | ||    ||  ||   |   | | ||  ||  |||     | |||| ||  |      | |||||   | ||||  || || | | ||    | | | |   ||||||| ||| | |||||||| ||||| ||||||||||| |||||||| || || ||||| ||||| || ||||| || || || || || || || ||||
-----------------------------------------------------------------------------cttggatg---aatagtgcgctttttagtctgccatatttgcttaatttgaatgcaac-----tactttgt-ctctactgttaaaactgggatgtacactatttgccagGTGGAACAGTTGCACAAGATTTTCAAGCTATGTGGTTCCCCTTCTGAGGAGTACTGGAAGAAGTCTAAATTGCCACACGCAACAATATTCAAACCTCAAC

upper sequence: GLYMA15G10470.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G084347_T01 (Zea mays), 3'ss of exon 3
gtaatctatgatggatacattatatagggtctatagttgcatcttttaagggcataatgtgtattcagtttactagtctaaggtgcaagattttgttgtccatggcctctcaattttctgctacttgattgtgaaatttgtgctttggattttacttctataattagcatccttatgtgttgtagGTGGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGATGAATATTGGAAAAAGTCAAAGTTGCCTCATGCTACCATTTTTAAGCCCCAAC
                                                                                   ||     || |||||| |||    ||  |     | | |   |         |||| |  |    |||| |||  | || |||   |   ||    || |||||||| |||||||| || || || ||  | ||||| || ||  | || ||||||||||||||||| ||| | ||||||||||| || |||||||| || |
------------------------------------------------------------------------------ccgtttgtgcatttctgttgtgcatactatccaa----cccgatgaatagcaactgcatttatcttccatatttcactgatctagtta---tgtctactccttttagGTGGAACAGCTACATAAAATTTTTAAGTTGTGTGGCTCCCCAACAGAAGAATATTGGAAAAAGTCGAAGCTACCTCATGCTACAATATTTAAGCCTCAGC

upper sequence: GLYMA15G10470.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv05s0020g01890.t01 (Vitis vinifera), 3'ss of exon 3
gtaatctatgatggatacattatatagggtctatagttgcatcttttaagggcataatgtgtattcagtttactagtctaaggtgcaagattttgttgtccatggcctctcaattttctgct-acttgattgtgaaatttgtgctttg--gattttacttctataattagcatccttatgtgttgt-agGTGGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGATGAATATTGGAAAAAGTCAAAGTTGCCTCATGCTACCATTTTTAAGCCCCAAC
                                                                                       ||  |||||||   ||   ||     |||   |   ||   ||| |||||   | |    |  | || || | ||   |  |   | ||| |||||  | ||||||||||||||||||||||||| || |||||||| ||||||||||| ||||| |||||||| ||||||||||| ||||| ||||| |||||||| ||||
---------------------------------------------------------------------------------------agggtttgttga--attttctaggtgtttgtggtggacccaattttgaaacaagagtacagctgcttctattgctgctaaaaattttcttttgtgtgctcagGTGGAGCAGCTACACAAGATATTTAAGCTATGTGGCTCTCCTTCTGAAGAATACTGGAAAAAATCAAAGTTGCCGCATGCAACCATATTTAAGCCTCAAC

upper sequence: GLYMA15G10470.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S428_20V6.1 (Physcomitrella patens), 3'ss of exon 3
gtaatctatgatggatacattatatagggtctatagttgcatcttttaagggcataatgtgtattcagtttactagtctaaggtgcaagattttgttgtccatggcctctcaattttctgctacttgattgtgaaatttgtgctttggattttacttctataattagcatccttatgtgttg-tagGTGGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGATGAATATTGGAAAAAGTCAAAGTTGCCTCATGCTACCATTTTTAAGCCCCAAC
                                                                                   |      | |||  ||   |      |  | |   |||   | | |||| | ||    |  ||  ||||           || | |     || || ||  ||||||| || || || ||||| |||||  |||| |||||||| || || || ||||||||||||||||| ||||| || ||||| || || ||||| ||||
-----------------------------------------------------------------------------------ttttccctcttgcggtggctacagattggagtagatgcgtttgggttgtaagatg---gtatttaatttagagaacgggtttggtacgggaatatggtggcagGTGGAACAACTTCATAAGATCTTCAAGTTATGCGGTTCTCCGTCCGAGGAGTATTGGAAAAAGTCAAAATTGCCGCACGCTACGATATTCAAGCCTCAAC

upper sequence: GLYMA15G10470.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ35595 (Selaginella moellendorffii), 3'ss of exon 2
gtaatctatgatggatacattatatagggtctatagttgcatcttttaagggcataatgtgtattcagtttactagtctaaggtgcaagattttgttgtccatggcctctcaattttctgctacttgattgtgaaatttgtgctttggattttacttctataattagcatccttatgtgttg--tagGTGGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGATGAATATTGGAAAAAGTCAAAGTTGCCTCATGCTACCATTTTTAAGCCCCAAC
                                                                                                                    | ||||  ||| || |    |||  | | |  | |  ||  ||    ||    | |||||   | |   ||||||||||  |||||||||| || || |||||||| || || || || || ||||||||||| || ||  | ||||| ||||| ||||||||||| || |
-------------------------------------------------------------------------------------------------------------------gtatgctcgttggtttttgt-tttacgatgtttagta-acgcctgccttt---cttcttattgatcgaacagGTGGAGCAATTACACAAGATTTTTAAGCTATGTGGCTCGCCATCGGAAGAGTATTGGAAAAAATCCAAACTTCCTCACGCTACGATTTTTAAGCCGCAGC

upper sequence: GLYMA15G10470.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ24328 (Selaginella moellendorffii), 3'ss of exon 4
gtaatctatgatggatacattatatagggtctatagttgcatcttttaagggcataatgtgtattcagtttactagtctaaggtgcaagattttgttgtccatggcctctcaattttctgctacttgattgtgaaatttgtgctttggattttacttctataattagcatccttatgtgttg--tagGTGGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGATGAATATTGGAAAAAGTCAAAGTTGCCTCATGCTACCATTTTTAAGCCCCAAC
                                                                                                                    | |||| |||| ||      ||| |  |  |   |||| |   |    |  | | |||||   | |   ||||||||||  |||||||||| || || |||||||| || || || || || ||||||||||| || ||  | ||||| ||||| ||||||||||| || |
-------------------------------------------------------------------------------------------------------------------gtatgctccttggtt------tttattttacgatgtttagta--acgcctgcctttcttattgatcgaacagGTGGAGCAATTACACAAGATTTTTAAGCTATGTGGCTCGCCATCGGAAGAGTATTGGAAAAAATCCAAACTTCCTCACGCTACGATTTTTAAGCCGCAGC

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|19270486|gb|BM886742.1|BM886742
EST:     TTCTTGCTGAATTGTTGGCTGGAAAGCCTATTATGCCTGGTCGAACAGAG                         GTGGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGATGAA
genomic: TTCTTGCTGAATTGTTGGCTGGAAAGCCTATTATGCCTGGTCGAACAGAGgtaatctatg ... tgtgttgtagGTGGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGATGAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgaaatttgtgctttggattttacttctataattagcatccttatgtgttgtagGTGGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGATGAATATTGGAAAAAGTCAAAGTTGCCTCATGCTACCATTTTTAAGCCCCAAC
                                       tccttat  CT-rich tract
                  attttacttctataat  TA-rich tract