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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtttctgtgtgtgggtctatctgtgcatttattgacatatatttggtaccttatttttgtttatggccttcccaaattggatatatattcagGTGTACTTTGAAGCTGATGAAGTTCAAGCTGCCATTGTTACTTGTGGGGGTCTGTGTCCTGGGCTCAACACTGTCATTAGGGAATTAGTGTGTGGCTTAC

Basic information

species Glycine max
transcript GLYMA07G15170.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G15170.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os06g05860.1 (Oryza sativa), 3'ss of exon 4
gtatgtttctgtgtgtgggtctatctgtgcatttattgacatatatttggtaccttatttttgtttatggccttcccaaattggatatatattcagGTGTACTTTGAAGCTGATGAAGTTCAAGCTGCCATTGTTACTTGTGGGGGTCTGTGTCCTGGGCTCAACACTGTCATTAGGGAATTAGTGTGTGGCTTAC
         | | |     | |||   |  | | |   | |||  || |  |     | ||  ||| |   |    || |||  ||   |  ||||||||  |||||| | ||||| || || ||   |||||| || ||||| || ||||| ||||| || |||||||||||||||||| | || ||||||||| 
--------gtatataacattgtattcatatactaacacaaataagttggaaaaaaactattctttttttctcacttcatatt--attcctggtcagGTGTTTTTTGAATCGGATGAGGTCCATGCATGCATTGTCACATGTGGAGGACTGTGCCCTGGACTGAACACTGTCATTAGGGAAATTGTATGTGGCTTAT

upper sequence: GLYMA07G15170.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G004932_T01 (Zea mays), 3'ss of exon 4
gtatgtttctgtgtgtgggtctatctgtgcatttattgacatatatttggtaccttatttttgtttatggccttcccaaattggatatatattcagGTGTACTTTGAAGCTGATGAAGTTCAAGCTGCCATTGTTACTTGTGGGGGTCTGTGTCCTGGGCTCAACACTGTCATTAGGGAATTAGTGTGTGGCTTAC
||| | | |     |      | | |   | |      ||  ||   | ||| ||    |  |       ||||     | | ||    | || |||| || ||||   | ||||||||  ||||   |||||| |||||||| || ||||| |||||||| |||||||| || |||||| | |||||||||||  
gtaagatacccctagccaccttgttta--cttgcgggaactcatcactcgtatctaggct--gacagaaaccttt--ggacttgaaccttttttagGTTTATTTTGGCACCGATGAAGTGAAAGCCTGCATTGTAACTTGTGGAGGCCTGTGCCCTGGGCTTAACACTGTTATCAGGGAACTGGTGTGTGGCTTGT

upper sequence: GLYMA07G15170.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv11s0016g02850.t01 (Vitis vinifera), 3'ss of exon 4
gtatgtttctgtgtgtgggtctatctgtgcatttattgacat-atatttggtaccttatttttgtttatggccttcccaaattggatatatattcagGTGTACTTTGAAGCTGATGAAGTTCAAGCTGCCATTGTTACTTGTGGGGGTCTGTGTCCTGGGCTCAACACTGTCATTAGGGAATTAGTGTGTGGCTTAC
||| || | ||| |||   | |||   || | ||  ||| || |||   |  |     ||||   |||     |||     |||| | | | | |||||||| |||||  ||||||||||||| ||    ||||| || ||||| ||| | || ||||| |||||||| || ||||||||| |||| ||||||||  
gtaagtctttgtttgt---tatattcatggaatt--tgaaatgataaaagacaataggttttctcttaacatattctt---ttgggtttttttccagGTGTATTTTGAGTCTGATGAAGTTCATGCATGTATTGTGACATGTGGTGGTTTATGCCCTGGCCTCAACACAGTGATTAGGGAAATAGTATGTGGCTTGA

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|208215058|gb|GE015125.1|GE015125
EST:     GCCGGGCCTCGTCAAAAG                         GTGTACTTTGAAGCTGATGAAGTTCAAGCTGCCATGGTTACTTGTGGGGGT
genomic: GCCGGGCCTCGTCAAAAGgtatgtttct ... atatattcagGTGTACTTTGAAGCTGATGAAGTTCAAGCTGCCATTGTTACTTGTGGGGGT
EST: gi|213598739|gb|DB956636.1|DB956636
EST:     AAGATGGTGCAAGAGGGGTACATTTTAGGCGTGCCGGGCCTCGTCAAAAG                         GTGTACTTTGAAGCTGATGAAGTTCAAGCTGCCATTGTTACTTGTGGGGGT
genomic: AAGATGGTGCAAGAGGGGTACATTTTAGGCGTGCCGGGCCTCGTCAAAAGgtatgtttct ... atatattcagGTGTACTTTGAAGCTGATGAAGTTCAAGCTGCCATTGTTACTTGTGGGGGT
EST: gi|17023871|gb|BM094905.1|BM094905
EST:     AAGATGGTGCAAGAGGGGTACATTTTAGGCGTGCCGGGCCTCGTCAAAAG                         GTGTACTTTGAAGCTGATGAAGTTCAAGCTGCCATTGTTACTTGTGGGGGT
genomic: AAGATGGTGCAAGAGGGGTACATTTTAGGCGTGCCGGGCCTCGTCAAAAGgtatgtttct ... atatattcagGTGTACTTTGAAGCTGATGAAGTTCAAGCTGCCATTGTTACTTGTGGGGGT
EST: gi|151398093|gb|EV267971.1|EV267971
EST:     AAGATGGAGCAAGAGGGGTACATTTTAGGCGTGCCGGGCCTCGTCAAAAG                         GTGTACTTTGAAGCTGATGAAGTTCAAGCTGCCATTGTTACTTGTGGGGGT
genomic: AAGATGGTGCAAGAGGGGTACATTTTAGGCGTGCCGGGCCTCGTCAAAAGgtatgtttct ... atatattcagGTGTACTTTGAAGCTGATGAAGTTCAAGCTGCCATTGTTACTTGTGGGGGT
EST: gi|151396687|gb|EV266560.1|EV266560
EST:     AAGATGGTGCAAGAGGGGTACATTTTAGGCGTGCCGGGCCTCGTCAAAAG                         GTGTACTTTGAAGCTGATGAAGTTCAAGCTGCCATTGTTACTTGTGGGGGT
genomic: AAGATGGTGCAAGAGGGGTACATTTTAGGCGTGCCGGGCCTCGTCAAAAGgtatgtttct ... atatattcagGTGTACTTTGAAGCTGATGAAGTTCAAGCTGCCATTGTTACTTGTGGGGGT
EST: gi|208034653|gb|GD834227.1|GD834227
EST:     CCTCGTCAAAAG                         GTGTACTTTGAAGCTGATGAAGTTCAAGCTGCCATTGTTACTTGTGGGGGT
genomic: CCTCGTCAAAAGgtatgtttct ... atatattcagGTGTACTTTGAAGCTGATGAAGTTCAAGCTGCCATTGTTACTTGTGGGGGT
EST: gi|209711853|gb|BW674115.1|BW674115
EST:     AAGATGGTGCAAGAGGGGTACATTTTAGGCGTGCCGGGCCTCGTCAAAAG                         GTGTACTTTGAAGCTGATGAAGTTCAAGCTGCCATTGTTACTTGTGGGGGT
genomic: AAGATGGTGCAAGAGGGGTACATTTTAGGCGTGCCGGGCCTCGTCAAAAGgtatgtttct ... atatattcagGTGTACTTTGAAGCTGATGAAGTTCAAGCTGCCATTGTTACTTGTGGGGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatatttggtaccttatttttgtttatggccttcccaaattggatatatattcagGTGTACTTTGAAGCTGATGAAGTTCAAGCTGCCATTGTTACTTGTGGGGGTCTGTGTCCTGGGCTCAACACTGTCATTAGGGAATTAGTGTGTGGCTTAC
                                    aaattggatatatatt  TA-rich tract