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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgactcttcgttttgctcttctgctcatccatgttacctacagaaaataatgcaattggttaaaccatgccttttgtttaaacagGGTGAGAAAGAGTGCTCCTACTATTTGAAAACGGGGCAGTGCAAATTTGGTATATCTTGTAAATTCCATCATCCTCAACCTGCTGGCACATCATTGCCAA

Basic information

species Glycine max
transcript GLYMA02G17250.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G17250.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g15460.2 (Oryza sativa), 3'ss of exon 4
gtatgactcttcgttttgctcttctgctcatccatgttacctacagaaaataatgcaattggttaaaccatgccttttgtttaa-acagGGTGAGAAAGAGTGCTCCTACTATTTGAAAACGGGGCAGTGCAAATTTGGTATATCTTGTAAATTCCATCATCCTCAACCTGCTGGCACATCATTGCCAA
|| |||    || |  |    |  |||| || |||   || |        |  |   |      | |   ||       |  ||  ||||||||||| ||||||||||||||  ||||||| ||||| || |||||||| |   | |||||||||||||||||  ||   | |||     |  || |  
gtgtgaaatctc-tcgtaaaatattgcttattcatac-acttgtttttcctgttttgaaaaag-agatgttggtacaaataaaatgcagGGTGAGAAGGAGTGCTCCTACTACATGAAAACTGGGCAATGTAAATTTGGAACTACATGTAAATTCCATCATCCGGAATTCGGTGGTGTTCCGATGACCC

upper sequence: GLYMA02G17250.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G036837_T02 (Zea mays), 3'ss of exon 4
gtatgactcttcgttttgctcttctgctcatccatgttacctacagaaaataatgcaattggttaaaccatgccttttgtttaaacagGGTGAGAAAGAGTGCTCCTACTATTTGAAAACGGGGCAGTGCAAATTTGGTATATCTTGTAAATTCCATCATCCTCAACCTGCTGGCACATCATTGCCAA
||||||   ||| |  |    || || |  |     ||    |     | |     || |  || |  |||   |   ||     |||||||||||||| |||||||||||| |||| || ||||| ||||| ||||||    | |||||||| ||||||||  ||  || ||| |   |  || |  
gtatgagaattc-tcctatgattgtgtttcttggattttttaagtattattggaaaaaataattga--cattaatgaagt----gcagGGTGAGAAAGAATGCTCCTACTATATGAAGACTGGGCAATGCAAGTTTGGTTCTACATGTAAATTTCATCATCCAGAATTTGGTGGTATTCCGGTGACCC

upper sequence: GLYMA02G17250.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G086994_T01 (Zea mays), 3'ss of exon 4
gtatgactcttcgttttgctcttctgctcatccatgttacctacagaaaataatgcaattggttaaaccatgccttttgtttaa-acagGGTGAGAAAGAGTGCTCCTACTATTTGAAAACGGGGCAGTGCAAATTTGGTATATCTTGTAAATTCCATCATCCTCAACCTGCTGGCACATCATTGCCAA
||||||   ||| |  |     | ||||  |   |   |  |  |      | ||   ||||  |||   |  | ||  |  ||  |||||||||||||| |||||||||||| |||| || ||||| ||||| ||||||    | |||||||| ||||||||  ||  || ||| |   |  |  |  
gtatgagaattc-tcctatggatgtgcttctttgtaacattttta------actgtttttgggaaaaaatttacattaatgaaatgcagGGTGAGAAAGAATGCTCCTACTATATGAAGACTGGGCAATGCAAGTTTGGTTCTACATGTAAATTTCATCATCCAGAATTTGGTGGTATTCCGGTAACCC

upper sequence: GLYMA02G17250.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G086994_T03 (Zea mays), 3'ss of exon 4
gtatgactcttcgttttgctcttctgctcatccatgttacctacagaaaataatgcaattggttaaaccatgccttttgtttaa-acagGGTGAGAAAGAGTGCTCCTACTATTTGAAAACGGGGCAGTGCAAATTTGGTATATCTTGTAAATTCCATCATCCTCAACCTGCTGGCACATCATTGCCAA
||||||   ||| |  |     | ||||  |   |   |  |  |      | ||   ||||  |||   |  | ||  |  ||  |||||||||||||| |||||||||||| |||| || ||||| ||||| ||||||    | |||||||| ||||||||  ||  || ||| |   |        
gtatgagaattc-tcctatggatgtgcttctttgtaacattttta------actgtttttgggaaaaaatttacattaatgaaatgcagGGTGAGAAAGAATGCTCCTACTATATGAAGACTGGGCAATGCAAGTTTGGTTCTACATGTAAATTTCATCATCCAGAATTTGGTGGTATTCCG-------

upper sequence: GLYMA02G17250.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G47850.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatgactcttcgttttgctcttctgctcatccatgttacctacagaaaataatgc--aattggttaaaccatgccttttgtttaaacagGGTGAGAAAGAGTGCTCCTACTATTTGAAAACGGGGCAGTGCAAATTTGGTATATCTTGTAAATTCCATCATCCTCAACCTGCTGGCACATCATTGCCAA
               |     || |   ||  ||||| |  || | |   || |    | || |    | | |   |    | |    ||||||| || || |||||||||||||||||||||||||| ||||||||||||||| | |||||||| ||||||||||| |||||||| ||  |  | ||| 
--------------gtaagctttgtttccactcatgtcaaata-aaaggctagtctcgagtttgcatgatcttttataaactctttgtagGGTGATAACGAATGCTCCTACTATTTGAAAACGGGGCAATGCAAATTTGGTATAACCTGTAAATTTCATCATCCTCAGCCTGCTGGTACTACTGTCCCAC

upper sequence: GLYMA02G17250.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G47850.2 (Arabidopsis thaliana), 3'ss of exon 4
gtatgactcttcgttttgctcttctgctcatccatgttacctacagaaaataatgc--aattggttaaaccatgccttttgtttaaacagGGTGAGAAAGAGTGCTCCTACTATTTGAAAACGGGGCAGTGCAAATTTGGTATATCTTGTAAATTCCATCATCCTCAACCTGCTGGCACATCATTGCCAA------------------------------------------------------------------------------
               |     || |   ||  ||||| |  || | |   || |    | || |    | | |   |    | |    ||||||| || || |||||||||||||||||||||||||| ||||||||||||||| | |||||||| ||||||||||| |||||||| ||  |  | |||                                                                               
--------------gtaagctttgtttccactcatgtcaaata-aaaggctagtctcgagtttgcatgatcttttataaactctttgtagggtgataacgaatgctcctactatttgaaaacggggcaatgcaaatttggtataacctgtaaatttcatcatcctcagCCTGCTGGTACTACTGTCCCACCACCACCAGCATCTGCACCTCAGTTTTATCCATCGGTGCAGTCACTTATGCCTGACCAGTATGGAGGTCCATCTTCTA

upper sequence: GLYMA02G17250.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv07s0104g01460.t01 (Vitis vinifera), 3'ss of exon 4
------gtatgactcttcgttttgctcttctgctca--tccatgttacctacagaaaataat-gcaattggttaaaccatgc----------cttttgttta-----------------aacagGGTGAGAAAGAGTGCTCCTACTATTTGAAAACGGGGCAGTGCAAATTTGGTATATCTTGTAAATTCCATCATCCTCAACCTGCTGGCACATCATTGCCAA
       | ||  |  |  ||   || ||||  |||  | | | ||||  |   |  ||  | | |||| |  ||   |  |          ||| ||||||                 |||||||||||||||| |||||||||||||||||||||||||||||||| ||||||||| | ||||||||||||||||||||||| |||||||||||||||||| 
gttgggatttggtttattcttcaccttttctaatcaaattcgttttactaaatcagcatggttgtaatttgggaatggacacttccatttagcttatgtttatgaattggaaattttgcaacagGGTGAGAAAGAATGCTCCTACTATTTGAAAACGGGGCAGTGCAAGTTTGGTATAACATGTAAATTCCATCATCCTCAACCAGCTGGCACATCATTGCCAG

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|151397510|gb|EV267383.1|EV267383
EST:     GATATTTAAGCCAAGCTCCACTAAATATTTATGGATACCCGTTACGGCTG                         GGTGAGAAAGAGTGCTCCTACTATTTGAAAACGGGGCAGTGCAAATTTGGT
genomic: GATATTTAAGCCAAGCTCCACTAAATATTTATGGATACCCGTTACGGCTGgtatgactct ... gtttaaacagGGTGAGAAAGAGTGCTCCTACTATTTGAAAACGGGGCAGTGCAAATTTGGT
EST: gi|4313837|gb|AI460956.1|AI460956
EST:     GATATTTAAGCCAAGCTCCACTAAATATTTATGGATACCCGTTACGGCTG                         GGTGAGAAAGAGTGCTCCTACTATNTGAAAACGGNGCAGTGCAAATTTGGT
genomic: GATATTTAAGCCAAGCTCCACTAAATATTTATGGATACCCGTTACGGCTGgtatgactct ... gtttaaacagGGTGAGAAAGAGTGCTCCTACTATTTGAAAACGGGGCAGTGCAAATTTGGT
EST: gi|208318175|gb|GE113652.1|GE113652
EST:     ATATTTATGGATACCCGTTACGGCTG                         GGTGAGAAAGAGTGCTCCTACTATTTGAAAACGGGGACAGTGCAAATTTGG
genomic: ATATTTATGGATACCCGTTACGGCTGgtatgactct ... gtttaaacagGGTGAGAAAGAGTGCTCCTACTATTTGAAAACGGGG-CAGTGCAAATTTGG
EST: gi|208212206|gb|GE015311.1|GE015311
EST:     ATATTTATGGATTACCCGTTACGGCTG                         GGTGAGAAAGAGTGCTCCTACTATTTGAAAACGGGG
genomic: ATATTTATGGA-TACCCGTTACGGCTGgtatgactct ... gtttaaacagGGTGAGAAAGAGTGCTCCTACTATTTGAAAACGGGG
EST: gi|151398628|gb|EV268499.1|EV268499
EST:     GATATTTAAGCCAAGCTCCACTAAATATTTATGGATACCCGTTACGGCTG                         GGTGAGAAAGAGTGCTCCTACTATTTGAAAACGGGGCAGTGCAAATTTGGT
genomic: GATATTTAAGCCAAGCTCCACTAAATATTTATGGATACCCGTTACGGCTGgtatgactct ... gtttaaacagGGTGAGAAAGAGTGCTCCTACTATTTGAAAACGGGGCAGTGCAAATTTGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgttacctacagaaaataatgcaattggttaaaccatgccttttgtttaaacagGGTGAGAAAGAGTGCTCCTACTATTTGAAAACGGGGCAGTGCAAATTTGGTATATCTTGTAAATTCCATCATCCTCAACCTGCTGGCACATCATTGCCAA
                                       ccttttgttt  CT-rich tract
             aaaataatgcaatt  TA-rich tract