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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttgcattttaatttcataattataatttgttgaatactaacaatgatatctaatgagagtttttctcttttcagCTTATCATCGAAGAAATTTGTCGTGATATCTACCGTGCAGATTCTGATTGGAAAGTTATACTGTTGAGATACTTCAACCCAGTTGGTGCACATCCCAGTG

Basic information

species Glycine max
transcript GLYMA05G36850.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G36850.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os08g28730.1 (Oryza sativa), 3'ss of exon 4
--------------gttttgcattttaatttcataat----tataatttgttgaatactaacaatgatatctaatgagagtttttctcttttcagCTTATCATCGAAGAAATTTGTCGTGATATCTACCGTGCAGATTCTGATTGGAAAGTTATACTGTTGAGATACTTCAACCCAGTTGGTGCACATCCCAGTG
                ||| | |||||||   | |||    ||  |||  |    |    | | |||   | | ||  |   |       | |||||| |  | ||||| ||||| ||||||||||||||| ||||| |||| |||||  |||| ||  | || |||||||| |||||||| || ||||| || |
gtctgtgtcccttcacttttc-ttttaatgagaaaatcttctaccattcataagttctccaaattgactacaattgtaaaaatgaac---tgcagCTTGTTGTTGAAGATATTTGCCGTGATATCTACCGTACAGATCCTGAATGGAAGATTATTCTACTTAGGTACTTCAATCCAGTTGGGGCTCATCCTAGCG

upper sequence: GLYMA05G36850.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G23920.1 (Arabidopsis thaliana), 3'ss of exon 4
------------------gttttgcattttaatttcataattataatt-tgttgaatactaacaatgat-------atctaa-tgagagtttttctcttttc------agCTTATCATCGAAGAAATTTGTCGTGATATCTACCGTGCAGATTCTGATTGGAAAGTTATACTGTTGAGATACTTCAACCCAGTTGGTGCACATCCCAGTG
                  || |||           | |  | ||| |  || |||||  ||| ||| |        |||| | ||||| | |||   | | |      ||||| | |||||||| ||||| || ||| |  | ||| | || || || |||||  | ||| || | |||||||||||||| |||||||||||||| ||||
gtagcacctttagcctgagtattgacccaagcccaccttgtgatagtggtgatgaatgataataatcaggaaatgaatctgactgagattatttgcttgtgctgtgtaagCTTTTTATCGAAGAGATTTGCCGGGATGTACATCGTTCTGACTCGGAATGGAAGATCATATTGCTTAGATACTTCAACCCTGTTGGTGCACATCCTAGTG

upper sequence: GLYMA05G36850.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv02s0025g01580.t01 (Vitis vinifera), 3'ss of exon 4
-----------------------------------------------------------------------gttttgcattttaatttcataat-tataatttgttgaatactaacaatgatatctaatgagagtttttctcttttcagCTTATCATCGAAGAAATTTGTCGTGATATCTACCGTGCAGATTCTGATTGGAAAGTTATACTGTTGAGATACTTCAACCCAGTTGGTGCACATCCCAGTG
                                                                       |   ||  |   |  || | ||| | |   || || | ||  | |  |  || | | |||     ||  || ||||||||| | || ||||| || || |||||||| ||| || |||||||||| |||||| |  |  || |||||||||||||||| |||||||||||| | ||||
gtatgctttgggcaatgaacagaggcaatagtttcggttcaggcatactaaagaaacagattgcacataaaggaatggttagaacctttacaatctgtttcttctttattagcatctgttctaacaactgatgaggttgatcctttcagCTTGTTATTGAAGATATATGCCGTGATATTTACGGTTCAGATTCTGAATGGAAAATAGTGTTGCTGAGATACTTCAACCCGGTTGGTGCACATTCTAGTG

upper sequence: GLYMA05G36850.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 4
--------------------gttttgcattttaa--tttcataattataatt-tgttgaatactaacaatgatatctaatgagagtttttctcttttcagCTTATCATCGAAGAAATTTGTCGTGATATCTACCGTGCAGATTCTGATTGGAAAGTTATACTGTTGAGATACTTCAACCCAGTTGGTGCACATCCCAGTG
                      ||| |||||| |  |||| | ||||  ||  | || | ||  | |  |  || | | |||     ||  |  ||||||||| |||| ||||| || || ||||||||| ||||  | |||||||| |||||| || |  || ||||||| |||||||||||||| |||||||| ||||
tagttagcaaagtactccttccttttcattttgaactttcttgattaggatcctctttattagcatctgttctagcaactgatgaggttgattctttcagCTTTTCATTGAAGATATATGCCGTGATATCCACCGCTCTGATTCTGAATGGAAAATTGTGTTGCTGAGATATTTCAACCCAGTTGGGGCACATCCTAGTG

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|192298481|gb|FG989187.1|FG989187
EST:     GTACCGAAGAGTTCCCTTTGTCAGCAACAAACCCATATGGACGAACCAAG                         CTTATCATCGAAGAAATTTGTCGTGATATCTACCGTGCAGATTCTGATTGG
genomic: GTACCGAAGAGTTCCCTTTGTCAGCAACAAACCCATATGGACGAACCAAGgttttgcatt ... ctcttttcagCTTATCATCGAAGAAATTTGTCGTGATATCTACCGTGCAGATTCTGATTGG
EST: gi|298193906|gb|HO040554.1|HO040554
EST:     GTACCGAAGAGTTCCCTTTGTCAGCGACAAACCCATATGGACGAACCAAG                         CTTATCATCGAAGAAATTTGTCGTGATATCTACCGTGCAGATTCTGATTGG
genomic: GTACCGAAGAGTTCCCTTTGTCAGCAACAAACCCATATGGACGAACCAAGgttttgcatt ... ctcttttcagCTTATCATCGAAGAAATTTGTCGTGATATCTACCGTGCAGATTCTGATTGG
EST: gi|261497131|gb|GT185199.1|GT185199
EST:     GTACCGAAGAGTTCCCTTTGTCAGCGACAAACCCATATGGACGAACCAAG                         CTTATCATCGAAGAAATTTGTCGTGATATCTACCGTGCAGATTCTGATTGG
genomic: GTACCGAAGAGTTCCCTTTGTCAGCAACAAACCCATATGGACGAACCAAGgttttgcatt ... ctcttttcagCTTATCATCGAAGAAATTTGTCGTGATATCTACCGTGCAGATTCTGATTGG
EST: gi|17022675|gb|BM093709.1|BM093709
EST:     GTACCGAAGAGTTCCCTTTGTCAGCAACAAACCCATATGGACGAACCAAG                         CTTATCATCGAAGAAATTTGTCGTGATATCTACCGTGCAGATTCTG
genomic: GTACCGAAGAGTTCCCTTTGTCAGCAACAAACCCATATGGACGAACCAAGgttttgcatt ... ctcttttcagCTTATCATCGAAGAAATTTGTCGTGATATCTACCGTGCAGATTCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttataatttgttgaatactaacaatgatatctaatgagagtttttctcttttcagCTTATCATCGAAGAAATTTGTCGTGATATCTACCGTGCAGATTCTGATTGGAAAGTTATACTGTTGAGATACTTCAACCCAGTTGGTGCACATCCCAGTG
                                        tttttctcttttc  CT-rich tract
                          atatctaat  TA-rich tract