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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcatctgatgttgaataattttcatttatggtgacttatgttttccaaaagattatggtctagagtctagacaatgcattccttgtagtgatgaattgatgacaagtgttgaatactgtacatttatcttttttgtttcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTCTATTCCCTGGTTCCAG

Basic information

species Glycine max
transcript GLYMA16G17580.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G17580.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os02g47220.3 (Oryza sativa), 3'ss of exon 5
gtgagcatctgatgttgaataattttcatttatggtgacttatgttttccaaaagattatggtctagagtctagacaatgcattccttgtagtgatgaattgatgacaagtgttgaatactg--tacatttatcttttttgtttcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTCTATTCCCTGGTTCCAG
                                                                || ||| |  || ||  | |   | |  ||    ||  ||   |  |  | | |  ||  |  ||    |  ||||     |  ||||||||||||||| |||||||| |||||||| ||| |||| || || | |||||| || |||||  | ||
---------------------------------------------------------------gtaaagtttctactatctactttgtattttggcacat--atagtacatactaagtcatgattggatgatcccctttttgccaacttgcagATATGTGGGCTATGGGTGCCATAATGGCCGAGCTGTTGACACTTCATCCTCTTTTTCCTGGCACAAG

upper sequence: GLYMA16G17580.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G108829_T01 (Zea mays), 3'ss of exon 10
gtgagcatctgatgttgaataattttcatttatggtgacttatgttttccaaaagattatggtctagagtctagacaatgcattccttgtagtgatgaattgatgacaagtgttgaatactgtacatttatcttttttgtttcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTCTATTCCCTGGTTCCAG
                                              |   ||||    | ||  ||   | |    | ||  ||   | |  | |||  | ||  |     | |    ||   |||||| |     |||     ||   ||||||||||||||||||||| ||||||||||||||||| || || | |||||| || |||||  | ||
---------------------------------------------gtatgaaaaataaaaggcttactatttgcttagtgttttgtcttt--tcatgggtggaccaactcagcttgtaacctgacatttcttcaccttgccatctc-atagATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAG

upper sequence: GLYMA16G17580.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G178822_T01 (Zea mays), 3'ss of exon 11
gtgagcatctgatgttgaataattttcatttatggtgacttatgttttccaaaagattatggtctagagtctagacaatgcattccttgtagtgatgaattgatgacaagtgttgaatactgtacatttatcttttttgtttcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTCTATTCCCTGGTTCCAG
                              ||||   | | |   |    |||| | ||   | |   |  |||    ||   ||  |  |  |||| |   |   ||| |  | |   ||| |||||| |     | |     ||   ||||||||||||||||||||| |||||||||||| |||| || || | |||||| || |||||  ||||
-----------------------------gtatgaaaaataaaact----aaaaaaatactattt---gcttagtgtttg---tctattcatggatggaccaact-caactcgtaat--ctg-acatttcttcacctcgccatctc-atagATATGTGGGCAATGGGTGCCATAATGGCTGAGCTGTTGACACTCCATCCTCTCTTTCCTGGAACCAG

upper sequence: GLYMA16G17580.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv02s0033g01110.t01 (Vitis vinifera), 3'ss of exon 7
gtgagcatctgatgttgaataattttcatttatggtgacttatgttttccaaaagattatggtctagagtct-agacaatgcattccttgtagtgatgaattgatgacaagtgttgaatactgtacatttatcttttttgtttcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTCTATTCCCTGGTTCCAG
                                                 ||  | ||  | |   |||| || | |   |       ||| |   ||      ||         |  | |||| |  ||||| |   || ||||  || ||||||||||||||||||||||||| |||||||| ||||| ||||| |||||||| || || || || ||
-----------------------------------------------gtcagtatatagttggaaagagactgaaattttatgaagtttgaaaaaatatccatatttttgtctgtagacactgaaattttatttccattttttc-cctccagATATGTGGGCAATGGGTGCTATCATGGCTGAATTGTTTACTCTCCGTCCTCTCTTTCCAGGATCGAG

upper sequence: GLYMA16G17580.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ22662 (Selaginella moellendorffii), 3'ss of exon 5
gtgagcatctgatgttgaataattttcatttatggtgacttatgttttccaaaagattatggtctagagtctagacaatgcattccttgtagtgatgaattgatgacaagtgttgaatactgtacatttatcttttttgtttcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTCTATTCCCTGGTTCCAG
                                  ||  ||| | || |      | |  | |  ||   |       ||||||| | |   ||   |       |  | |||||    |||| |    | ||| |     |    | |  || |||||||||||||||||||| ||||||||| | |||| |||  |                     
----------------------------------gtagcttcttttgtt-----gttcgttgcgtaatctt------atgcattacctcagGTACCGTGCCCCGG--AGGTGTT----ACTGCAGTCGTCTCTGTACAACTCTG-CGGTCGACATGTGGGCAATGGGTGCTATCATGGCTGAGCTTTTCAATCTCAGG--------------------

upper sequence: GLYMA16G17580.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ11811 (Selaginella moellendorffii), 3'ss of exon 5
gtgagcatctgatgttgaataattttcatttatggtgacttatgttttccaaaagattatggtctagagtctagacaatgcattccttgtagtgatgaattgatgacaagtgttgaatactgtacatttatcttttttgtttcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTCTATTCCCTGGTTCCAG
                                  ||  ||| | || |      | |  | |  ||   |       |||| || | |   ||   |   |   |  | |||||    |||| |    | ||| |     |    | |  || |||||||||||||||||||| ||||||||| | |||| |||  |                     
----------------------------------gtagcttcttttgtt-----gttcgttgcgtaatctt------atgctttacctcagGTACCGTGCTCCGG--AGGTGTT----ACTGCAGTCGTCTCTGTACAACTCTG-CGGTCGACATGTGGGCAATGGGTGCTATCATGGCTGAGCTTTTCAATCTCAGG--------------------

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|208167092|gb|GD962994.1|GD962994
EST:     TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTG                         ATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTC
genomic: TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTGgtgagcatct ... tcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTC
EST: gi|193718080|gb|FK653378.1|FK653378
EST:     TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTG                         ATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTC
genomic: TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTGgtgagcatct ... tcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTC
EST: gi|193495067|gb|FK460199.1|FK460199
EST:     TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTG                         ATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTC
genomic: TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTGgtgagcatct ... tcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTC
EST: gi|208299186|gb|GE100085.1|GE100085
EST:     TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTG                         ATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTC
genomic: TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTGgtgagcatct ... tcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTC
EST: gi|193599933|gb|FK550734.1|FK550734
EST:     TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTG                         ATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTC
genomic: TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTGgtgagcatct ... tcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTC
EST: gi|208169630|gb|GD967787.1|GD967787
EST:     TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTG                         ATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTC
genomic: TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTGgtgagcatct ... tcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTC
EST: gi|193345679|gb|FK313762.1|FK313762
EST:     TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTG                         ATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTC
genomic: TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTGgtgagcatct ... tcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTC
EST: gi|193423617|gb|FK387282.1|FK387282
EST:     TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTG                         ATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTC
genomic: TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTGgtgagcatct ... tcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTC
EST: gi|207727178|gb|GD701128.1|GD701128
EST:     TCGTGCTCCTGAAGTCCTGCTTCGGTCCCATCTATATAGCTCTAAAGTTG                         ATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTC
genomic: TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTGgtgagcatct ... tcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTC
EST: gi|193651862|gb|FK595565.1|FK595565
EST:     TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTG                         ATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCATCCTC
genomic: TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTGgtgagcatct ... tcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTC
EST: gi|12690052|gb|BG156388.1|BG156388
EST:     TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTG                         ATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTC
genomic: TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTGgtgagcatct ... tcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTC
EST: gi|193411420|gb|FK381551.1|FK381551
EST:     TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTG                         ATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTC
genomic: TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTGgtgagcatct ... tcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaattgatgacaagtgttgaatactgtacatttatcttttttgtttcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTCTATTCCCTGGTTCCAG
 aattgat  putative branch site (score: 4)
                              tttatcttttttgttt  putative PPT
                             atttatcttttttgtt  TA-rich tract