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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gctagtgctatattatggtcttgtacttttctttctagtctagtgtagcaagcgctagattgtttttcatttttctttcttcagacttgtattcttaaataacttctgttattctgtttagAGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTTCCAGAACCAGACCTTCCAGCAGTAATCCTTTCTCAAGAATATGTTGATG

Basic information

species Glycine max
transcript GLYMA08G05190.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G05190.2 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os11g34210.1 (Oryza sativa), 3'ss of exon 4
gctagtgctatattatggtcttgtacttttctttctagtctagtgtagcaagcgctagattgtttttcatttttctttcttcagacttgtattcttaaataacttctgttattctgtttagAGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTTCCAGAACCAGACCTTCCAGCAGTAATCCTTTCTCAAGAATATGTTGATG
                | |  | |   |  |||| |   || ||||  |   |||   |||||  ||  |  | |  | |  | |||     |  ||  ||   | | ||    |  | ||| |||  |||||||| | |||||||| || |||||||||||| |||||||||| || || || ||||| | |||  | ||| ||   || ||  ||||||
----------------gttactatgtctcactttgttaacttgtgtttc---cgccc-attgtccttt-tgctaccatttctaaactc----tgctatttattgtttatttgcatcctcagAAAACTTTTACAATGCGAAAAAAGGAGGGACTTGCTGATTATAGATATTTTCCTGAGCCTGATCTTCCTGAAGTTGTTCTTACTAGTGAGTACATTGATG

upper sequence: GLYMA08G05190.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G091560_T01 (Zea mays), 3'ss of exon 3
gctagtgctatattatggtcttgtacttttctttctagtctagtgtagcaagcgctagattgtttttcatttttctttcttcagacttgtattcttaaataacttctgttattctgtttagAGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTTCCAGAACCAGACCTTCCAGCAGTAATCCTTTCTCAAGAATATGTTGATG
                                        |  |||  | | | |||   | |||||    |  |||| |||   |  ||| |  | | |  ||     ||     |  ||| |||  |||||||| | |||||||| || ||||| || ||| |||||||||||||||| || ||||| | |||| |  |  ||   || ||| || |||
--------------------------------------gttgttgtccccaactctaacctttttttg--ctggcttttttctaccaagtactaattattttctctatctacatcatc-agAAAACTTTTACAATGCGAAAAAAGGAGGGACTTGCCGACTATAGATATTTTCCAGAACCTGATCTTCCTGAAGTAGTTATCACTAGTGACTATATTAATG

upper sequence: GLYMA08G05190.2 (Glycine max), 3'ss of exon 3
lower sequence: AT1G48520.3 (Arabidopsis thaliana), 3'ss of exon 3
gctagtgctatattatggtcttgtacttttctttctagtctagtgtagcaagcgctagattgtttttcatttttctttcttcagacttgtattcttaaataacttctgttattctgtttagAGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTTCCAGAACCAGACCTTCCAGCAGTAATCCTTTCTCAAGAATATGTTGATG
                                            ||   ||||   |  |  ||  |||  |   |   ||     ||  ||    || ||||||  ||   |  ||| ||| |||| | |||||||||||||||||||||||||||||||| || || |||||||||||||| ||||||| ||| |||||| | ||||||||||||||| 
--------------------------------------------gttctaagctaaaactctttcatcaggtgcttccttt-----ttccatcagcaactaacttgagtagat--gttcagAAAACAGTAACAATGAGGAAAAAGGAAGGGCTTGCTGATTACCGCTACTTTCCAGAACCAGATCTTCCAGAAGTTATCCTTACCCAAGAATATGTTGATA

upper sequence: GLYMA08G05190.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv05s0049g02140.t01 (Vitis vinifera), 3'ss of exon 4
--------------gctagtgctata--ttatggtcttgtacttttctttctagtctagtgtagcaagcgctagattgtttttcatttttctttcttcaga---cttgtattcttaaataacttctgttattctgtttagAGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTTCCAGAACCAGACCTTCCAGCAGTAATCCTTTCTCAAGAATATGTTGATG
                | ||  |     |||| || || |  || | |||||  | |   | | |||       | ||   ||||  |   |  ||  ||    ||| | | ||  |  ||||| |||| |  ||| |||| |||  |||||||||| || |||||||| ||| | |||||||||||||| || || || || ||||||| |||||| ||| || | || ||||||| | 
gttgtagctacatccttggtttttccctttattgttttttttttctttttcttttttgtggaatcaatataagaaatgaaattcacatagttgcctcaaggatgcttatttgctctagcaacttttgttgtaatgtgtagAAAACGGTTACAATGAGAAAGAAGGAAGGTCTTTCCGATTATCGATATTTCCCTGAGCCTGATCTTCCAGAAGTAATTCTTACTGAGGATTATGTTGGTA

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|207732181|gb|GD706240.1|GD706240
EST:     GGGAAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAG                         AGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
genomic: AGGAAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAGgctagtgcta ... ttctgtttagAGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
EST: gi|193407974|gb|FK370676.1|FK370676
EST:     AAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAG                         AGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
genomic: AAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAGgctagtgcta ... ttctgtttagAGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
EST: gi|208340871|gb|GE138315.1|GE138315
EST:     GGAAGATCTAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAG                         AGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
genomic: GGAAGATC-AGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAGgctagtgcta ... ttctgtttagAGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
EST: gi|208332186|gb|GE128619.1|GE128619
EST:     GGGAAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAG                         AGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
genomic: AGGAAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAGgctagtgcta ... ttctgtttagAGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
EST: gi|193634510|gb|FK580281.1|FK580281
EST:     GGGAAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAG                         AGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
genomic: AGGAAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAGgctagtgcta ... ttctgtttagAGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
EST: gi|193597471|gb|FK551901.1|FK551901
EST:     GGGAAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAG                         AGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
genomic: AGGAAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAGgctagtgcta ... ttctgtttagAGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
EST: gi|16278307|gb|BI942834.1|BI942834
EST:     AGGAAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAAGCTCTCAG                         AGAACAAATACAATGAGGAAAAAGGAAGG
genomic: AGGAAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAGgctagtgcta ... ttctgtttagAGAACAATTACAATGAGGAAAAAGGAAGG
EST: gi|17401018|gb|BM177800.1|BM177800
EST:     GGGAAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAG                         AGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
genomic: AGGAAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAGgctagtgcta ... ttctgtttagAGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
EST: gi|207752281|gb|GD725394.1|GD725394
EST:     GGGAAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAG                         AGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
genomic: AGGAAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAGgctagtgcta ... ttctgtttagAGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
EST: gi|208223586|gb|GE025307.1|GE025307
EST:     AAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAG                         AGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
genomic: AAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAGgctagtgcta ... ttctgtttagAGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
EST: gi|16284057|gb|BI945882.1|BI945882
EST:     AGGAAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAG                         AGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
genomic: AGGAAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAGgctagtgcta ... ttctgtttagAGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
EST: gi|207750895|gb|GD723462.1|GD723462
EST:     AAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAG                         AGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
genomic: AAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAGgctagtgcta ... ttctgtttagAGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
EST: gi|208119275|gb|GD916550.1|GD916550
EST:     GGGAAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAG                         AGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
genomic: AGGAAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAGgctagtgcta ... ttctgtttagAGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
EST: gi|16282904|gb|BI945266.1|BI945266
EST:     AGGAAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAG                         AGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
genomic: AGGAAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAGgctagtgcta ... ttctgtttagAGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
EST: gi|193619860|gb|FK569015.1|FK569015
EST:     AAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAG                         AGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
genomic: AAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAGgctagtgcta ... ttctgtttagAGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
EST: gi|207766196|gb|GD737726.1|GD737726
EST:     AAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAG                         AGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT
genomic: AAGATCAGATAGTACAAGAAACTCGTTTATGGGAAGAAGGCTCTCAGgctagtgcta ... ttctgtttagAGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatttttctttcttcagacttgtattcttaaataacttctgttattctgtttagAGAACAATTACAATGAGGAAAAAGGAAGGGCTTGCTGATTATCGATATTTTCCAGAACCAGACCTTCCAGCAGTAATCCTTTCTCAAGAATATGTTGATG
                              aaataac  putative branch site (score: 2)
                                             ttctgttt  putative PPT
                    ttgtattcttaaataa  TA-rich tract