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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaatttagtactagtttgttgtgtttgatgtttctgttatctgacaagtgaccttatgacctttaaatcggtaattatttccatataatcgtgtttatagGTTAAAGCTGTTGCTGAGGAAATGGGAATTGGATTTTTGGGGATTGGTTTCCAGCCAAAGTGGGGAATCAAAGACATACCTATAATGCCAAAG

Basic information

species Glycine max
transcript GLYMA05G37850.3
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G37850.3 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os05g03820.2 (Oryza sativa), 3'ss of exon 4
------------------------------------aaatttagtactagtttgttgtgtttg-atgtttctgttatctg-acaagtgaccttatgacctttaaatcggtaattatttccatataa-----tcgtgtttatagGTTAAAGCTGTTGCTGAGGAAATGGGAATTGGATTTTTGGGGATTGGTTTCCAGCCAAAGTGGGGAATCAAAGACATACCTATAATGCCAAAG
                                      ||||  |  |   || |  | |  | ||     ||  || |  |        |  |     |||    | | | ||  | | ||   |       ||  || ||||| ||||| ||||  ||||||||||| ||||||||| | || |||||||| ||||||||||||| | | |  |||||||| |||||||| |||
gtaatgtgcagtgcatccctgtattaacttcttgctttatttgattttcacttatgatttgcgcattgccatgccatatatatcttcagtccgaaagtttttttgccagcagttgatccaatccgaaacgtctgttcttgtagGTCAAAGCAGTTGGAGAGGAAATGGGGATTGGATTTCTCGGAATTGGTTTTCAGCCAAAGTGGGCACTGAGTGACATACCAATAATGCCCAAG

upper sequence: GLYMA05G37850.3 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os07g27790.1 (Oryza sativa), 3'ss of exon 4
-------------------------------------------aaatttagtactagtttgttgtgtt----tgatgtttctgttatctgacaagtgaccttatgacctttaaatcggtaatt-atttccatataatcgtgtttatagGTTAAAGCTGTTGCTGAGGAAATGGGAATTGGATTTTTGGGGATTGGTTTCCAGCCAAAGTGGGGAATCAAAGACATACCTATAATGCCAAAG
                                           |  || |||  |  ||||| |  ||    ||   | | | |  || | |        || |    |   |   | | ||  | | | | |      |  || ||||| ||||| ||||  ||||||||||| ||||||||| | || |||||||| ||||||||||||| | | |  |||||||| |||||||| |||
gtaatgcgcactgcatccctgtattaacttcttgctttatgtgattttcagttatgatttgt-gcattgccatgccatatatatcttcagtccgaaagtttttttttttgccagcagttgatccaatccgaaacgtctattcttgtagGTCAAAGCAGTTGGAGAGGAAATGGGGATTGGATTTCTCGGAATTGGTTTTCAGCCAAAGTGGGCACTGAGTGACATACCAATAATGCCCAAG

upper sequence: GLYMA05G37850.3 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G111579_T01 (Zea mays), 3'ss of exon 3
--------aaatttagtactagtttgttgtgtttgatgtttctgttatctgacaagtgaccttatgacctttaaatcggtaattatttccatataatcgtgtttatagGTTAAAGCTGTTGCTGAGGAAATGGGAATTGGATTTTTGGGGATTGGTTTCCAGCCAAAGTGGGGAATCAAAGACATACCTATAATGCCAAAG
        |  || || | |   | ||    | |    ||| | ||   |  || |||   ||| |   | ||   |   ||   || ||        ||  ||  |||||||||| ||||  |||||||||||||| |||||| | ||| |||| || |||||||| |||| | | |  |||||||| ||||||||||||
atgggaaaatgttaagaattgtatggtaccatattgcatttttcttgcatttca-gtgcaattagggtatgtatgaccccaaagtttgcc-------tgttcttgcagGTTAAAGCAGTTGGAGAGGAAATGGGAATAGGATTTCTTGGGCTTGGCTTTCAGCCAAAATGGGCACTGAGTGACATACCAATAATGCCAAAG

upper sequence: GLYMA05G37850.3 (Glycine max), 3'ss of exon 4
lower sequence: AT4G23100.3 (Arabidopsis thaliana), 3'ss of exon 4
aaatttagtactagtttgttgtgtttgatgtttctgttatctgacaagtgaccttatgacctt-taaatcggtaattatttccatataatcgtgtttatagGTTAAAGCTGTTGCTGAGGAAATGGGAATTGGATTTTTGGGGATTGGTTTCCAGCCAAAGTGGGGAATCAAAGACATACCTATAATGCCAAAG
                 ||  | |   |  |   | ||  |       | ||| ||  || |   ||||    || ||| | |  ||        | | |||| ||||| ||||||||||||||||||||||| || || || ||||| |||||||| || ||| |     | || ||||| || |||||||||
-----------------gtaatttcaaagataattattgccaatgctctcaccctaaaacgtgacaaataaccaactatctacggatg-------tcacagGTAAAAGCAGTTGCTGAGGAAATGGGAATTGGTTTCTTAGGAATTGGCTTCCAGCCCAAATGGCGTCGGGAGGATATACCCATCATGCCAAAG

upper sequence: GLYMA05G37850.3 (Glycine max), 3'ss of exon 4
lower sequence: Vv02s0025g03530.t01 (Vitis vinifera), 3'ss of exon 4
--aaatttagtactagtttgttgtgtttgatgtttctgttatctgacaagtgaccttatgacctttaaatcggtaattatttccatataatcgtgttta-tagGTTAAAGCTGTTGCTGAGGAAATGGGAATTGGATTTTTGGGGATTGGTTTCCAGCCAAAGTGGGGAATCAAAGACATACCTATAATGCCAAAG
  |   || ||  |    | | || |||||  | ||| | |  |   |  | ||| |||| |    || | ||| ||| | | |  ||  |  ||||||  |||||||||| ||||| ||||||||||| |||||||| || || |||||||||||||| || ||||  || ||||| |||||||||||||| |||
acattatttgtgtttagctttggtttttgaaatctct-taagataggatat-accgtatg-ctacgaacttggttattgtctgctaatgtttttgtttaacagGTTAAAGCAGTTGCAGAGGAAATGGGGATTGGATTCTTAGGTATTGGTTTCCAGCCCAAATGGGCTATTAAAGATATACCTATAATGCCCAAG

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|19348212|gb|BM892744.1|BM892744
EST:     TTGAAACCTTGCATCAGACTTGTGCTGAAGTTAATTCCCACCTTTATCAG                         GTTAAAGCTGTTGCTGAGGAAATGGGAATTGGATTTTTGGGGATTGGTTTC
genomic: TTGAAACCTTGCATCAGACTTGTGCTGAAGTTAATTCCCACCTTTATCAGgtacttgttt ... gtgtttatagGTTAAAGCTGTTGCTGAGGAAATGGGAATTGGATTTTTGGGGATTGGTTTC
EST: gi|120496239|gb|EH224406.1|EH224406
EST:     TTGAAACCTTGCATCAGACTAGTGCTGAAGTTAATTCCCACCTTTATCAG                         GTTAAAGCTGTTGCTGAGGAAATGGGAATTGGATTTTTGGGGATTGGTTTC
genomic: TTGAAACCTTGCATCAGACTTGTGCTGAAGTTAATTCCCACCTTTATCAGgtacttgttt ... gtgtttatagGTTAAAGCTGTTGCTGAGGAAATGGGAATTGGATTTTTGGGGATTGGTTTC
EST: gi|120493888|gb|EH222055.1|EH222055
EST:     TGCATCAGACTTGTGCTGAAGTTAATTCCCACCTTTATCAG                         GTTAAAGCTGTTGCTGAGGAAATGGGAATTGGATTTTTGGGGATTGGTTTC
genomic: TGCATCAGACTTGTGCTGAAGTTAATTCCCACCTTTATCAGgtacttgttt ... gtgtttatagGTTAAAGCTGTTGCTGAGGAAATGGGAATTGGATTTTTGGGGATTGGTTTC
EST: gi|9204205|gb|BE330429.1|BE330429
EST:     TTGAAACCTTGCATCAGACTTGTGCTGAAGTTAATTCCCACCTTTATCAG                         GTTAAAGCTGTTGCTGAGGAAATGGGAATTGGATTTTTGGGGATTGGTTTC
genomic: TTGAAACCTTGCATCAGACTTGTGCTGAAGTTAATTCCCACCTTTATCAGgtacttgttt ... gtgtttatagGTTAAAGCTGTTGCTGAGGAAATGGGAATTGGATTTTTGGGGATTGGTTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagtgaccttatgacctttaaatcggtaattatttccatataatcgtgtttatagGTTAAAGCTGTTGCTGAGGAAATGGGAATTGGATTTTTGGGGATTGGTTTCCAGCCAAAGTGGGGAATCAAAGACATACCTATAATGCCAAAG
                          taattatttccatata  TA-rich tract