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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgatagtactgccgaaatctatagatgtcttggaattatatgcactaattttagttctgctttggtacttctagtaggtatttacattttgttttgcagCTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCTTTTTTCCCAATAATCCATCATGACATTGCTAATGAAATTCCAATTCATCTTCAAAAATTGCAATA

Basic information

species Glycine max
transcript GLYMA07G31090.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G31090.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G041181_T01 (Zea mays), 3'ss of exon 5
atgatagtactgccgaaatctatagatgtcttggaatta-tatgca-ctaattttagttctgctttggtacttctagtaggtatttacattttgttttgcagCTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCTTTTTTCCCAATAATCCATCATGACATTGCTAATGAAATTCCAATTCATCTTCAAAAATTGCAATA
 ||    |  |   |||   |||   |  | ||   ||| |||  | || |||||  ||| |   | |     ||  ||  | ||   ||||||||| |||||||| |||||  |||||||||| |||||||| |||||| | ||| | ||||||||||| ||  | ||||| || || | ||| ||||||| | |||||||
ctgggccttgtcatgaagattatttgttccatgtttttaatataaagctcattttgtttcagaggttgctaagct--tacattttattattttgtttggcagCTGGCATTGTCATTGAGGAGAAAAATTGGCCTCCTTTTCTGCCACTCATCCATCATGATATCACCAATGAGATACCGAGTCACCTTCAAAGAATGCAATA

upper sequence: GLYMA07G31090.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G448715_T01 (Zea mays), 3'ss of exon 5
atgatagtactgccgaaatctatagatgtcttggaattatatgcactaattttagttctgctttggtacttcta-gtaggtattt-acattttgttttgcagCTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCTTTTTTCCCAATAATCCATCATGACATTGCTAATGAAATTCCAATTCATCTTCAAAAATTGCAATA
   |  | | || |   |    ||  |   |     || |    |  || || | ||    |       ||||| |     |||| |   ||||||| |||||||| |||||  |||||||||| |||||||| |||||| | ||| | ||||||||||| ||    ||||| || || | ||| ||||||| | |||||||
--cagggcattggcatgaaaattattttgatccatgtttttaagataaagttcattttgtttcacaagtttctaagcttacatttcattatttgtttggcagCTGGCATTGTCATTGAGGAGAAAAATTGGCCTCCTTTTATGCCACTCATCCATCATGATATCATCAATGAGATACCGAGTCACCTTCAAAGAATGCAATA

upper sequence: GLYMA07G31090.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv00s0301g00030.t01 (Vitis vinifera), 3'ss of exon 5
atgatagtactgccgaaatctatagatgtcttggaattatatgcactaattttagttctgctttggtacttctagtaggtatttac-attttgttttgcagCTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCTTTTTTCCCAATAATCCATCATGACATTGCTAATGAAATTCCAATTCATCTTCAAAAATTGCAATA
 | |||  | |   ||  | |  |  |  ||   |  |  |  |||     |||||| | |  ||  | ||    |     ||| | | |||||||| ||||||||||||||||||||||||| |||||||| || || |||||||| ||||||||||| ||||| |||||||| || |||||||| ||||| ||||| ||
ctaataacattatggacttattcaatttcctcaaacctccaaacaccc-cattagtttttccatgcaatttacgtttcaagttttctactttgttttccagCTGGAATTGTTCTTGAGGAGAAAAATTGGCCACCATTCTTCCCAATTATCCATCATGATATTGCGAATGAAATACCGATTCATCTACAAAAGTTGCAGTA

upper sequence: GLYMA07G31090.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ28229 (Selaginella moellendorffii), 3'ss of exon 4
atgatagtactgccgaaatctatagatgtcttggaattatatgcactaattttagttctgctttggtacttctagtaggtatttacattttgttttgcagCTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCTTTTTTCCCAATAATCCATCATGACATTGCTAATGAAATTCCAATTCATCTTCAAAAATTGCAATA
                                              |||  |  || | | |||  ||  |||   | | ||  |||  ||  | ||||||||||||  |||| ||||||||||| ||||| || |||||||| || ||||  |||||||||  |   || |||||| | |||||||||    | || ||
---------------------------------------------gtaagct--gtccagatttattatgtcttcgatg-ataaacaagtt--tatgcagCTGGAATCTTTCTAGAGGAGAAGAACTGGCCTCCCTTTTTCCCGATCATCCGCCATGACATTCGTCGCGACATTCCATTGCATCTTCAACGCCTACAGTA

upper sequence: GLYMA07G31090.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ29726 (Selaginella moellendorffii), 3'ss of exon 1
--------------------------------------------atgatagtactgc--cgaaatctatagatgtcttggaattata---tgcactaatttta--gttctgctttggtacttctagtaggtatttacattttgttttgcagCTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCTTTTTTCCCAATAATCCATCATGACATTGCTAATGAAATTCCAATTCATCTTCAAAAATTGCAATA
                                            ||| |     ||   |   | ||    | |   |||||  | |   ||| | |  |     || | | |||  ||  ||| | | | ||  |||  ||  | ||||||||||||  |||| ||||||||||| ||||| || |||||||| || ||||  |||||||||  |   || |||||| | |||||||||           
gtagtcctctgttggaaatttttttcttccctccttaaagagaaatgcttactttgtttcaggagctgcgaaagc--tggaagcacaagctgcgcgaggtaagctgtccagatttattatgtcttggatg-ataaacaagTT--TATGCAGCTGGAATCTTTCTAGAGGAGAAGAACTGGCCTCCCTTTTTCCCGATCATCCGCCATGACATTCGTCGCGACATTCCATTGCATCTTCAACG---------

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|298171465|gb|HO016497.1|HO016497
EST:     GAAGTGAGACGGAAAGAAGAAGCTGCTTCACGAG                         CTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCTTTTTTCCCAATAATCC
genomic: GAAGTGAGACGGAAAGAAGAAGCTGCTTCACGAGgtgatttaca ... tgttttgcagCTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCTTTTTTCCCAATAATCC
EST: gi|151393785|gb|EV263660.1|EV263660
EST:     GAAGTGAGACGGAAAGAAGAAGCTGCTTCACGAG                         CTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCTTTTTTCCCAATAATCC
genomic: GAAGTGAGACGGAAAGAAGAAGCTGCTTCACGAGgtgatttaca ... tgttttgcagCTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCTTTTTTCCCAATAATCC
EST: gi|298198010|gb|HO039549.1|HO039549
EST:     GAAGTGAGACGGAAAGAAGAAGCTGCTTCACGAG                         CTGGAATTGTTCTTGAGGAGAAG
genomic: GAAGTGAGACGGAAAGAAGAAGCTGCTTCACGAGgtgatttaca ... tgttttgcagCTGGAATTGTTCTTGAGGAGAAG
EST: gi|13311994|gb|BG405645.1|BG405645
EST:     CAGGAAGTGAGACGGAAAGAAGAAGCTGCTTCACGAG                         CTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCTTTTTTCCCAATAATCC
genomic: CAGGAAGTGAGACGGAAAGAAGAAGCTGCTTCACGAGgtgatttaca ... tgttttgcagCTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCTTTTTTCCCAATAATCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctaattttagttctgctttggtacttctagtaggtatttacattttgttttgcagCTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCTTTTTTCCCAATAATCCATCATGACATTGCTAATGAAATTCCAATTCATCTTCAAAAATTGCAATA
 cactaat  putative branch site (score: 2)
                                          ttttgtttt  putative PPT
                                  tatttacattttgttt  TA-rich tract