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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgttaaaattggagtttgacagtgcactagctttagattttggatcatgctcttgtactttttttcccattattaggagatgcctcactggcttttacttatgttgttttctattttcccacagACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG

Basic information

species Glycine max
transcript GLYMA08G44410.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G44410.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G014313_T02 (Zea mays), 3'ss of exon 3
gtgttaaaattggagtttgacagtgcactagctttagattttggatcatgc-tcttgtactttt-tttcccattattaggagatgcctcactggcttttacttatgttgttttctattttcccacagACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG
                      || |  | | |    |   ||  | |    |  || ||| |  ||  | | |  |  |  || |  |  |   || || | |  |  |    | | ||    ||||| ||||| ||||| |||||||||||||||||||| || || || ||||
----------------------gttctgt-gttccgtacactgatttacttgtggtgcactatagttggctaatcgtgtggcattctaccgtatgttatattaacatcataacttgtgtttttgcagACACTTACATTTGCATGGGTGAACTTTTTCTTTTCAGGTTTCGTTGCAG

upper sequence: GLYMA08G44410.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv00s0187g00170.t01 (Vitis vinifera), 3'ss of exon 3
gtgttaaaattggagtttgacagtgcactagctttagattttggatcatgctcttgtactttttttcccattattaggagatgcctcactggcttttacttatgttgttttctattttcccacagACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG
                                     |||   |    || | |       | ||    | | | |         | |||  |  ||| |||   | ||||    ||    |||||||||||||||||||||||| ||||||||||| ||||||||||||||||
-----------------------------------gtattgctgtcggtgttttctgttgctattctttaatgtaatagatcagatgactaaccattaattaccgttttttacccttgtggacagACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAG

upper sequence: GLYMA08G44410.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv00s0187g00220.t01 (Vitis vinifera), 3'ss of exon 3
gtgttaaaattggagtttgacagtgcactagctttagattttggatcatgctcttgtactttttttcccattattaggagat-gcctcactggcttttacttatgttgttttctattttcccacagACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG
                                     |||   |    || | || |  |  | |||       ||  ||||    | |||  |  ||| |||   | ||||    ||    |||||||||||||||||||||||| ||||||||||| ||||||||||||||||
-----------------------------------gtattgctgtcggtgtttttctgttgctattctttaatgtaatagatcagatgactaaccattaattactgttttttacccttgtggacagACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAG

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|208135014|gb|GD926661.1|GD926661
EST:     ACATGGCCATGGATATGATGAAGAAAAACCTTTCAATGATAATTCCTCAG                         ACTCTTACTTTTGCTTAGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG
genomic: ACATGGCCATGGATATGATGAAGAAAAACCTTTCAATGATAATTCCTCAGgtgttaaaat ... tttcccacagACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG
EST: gi|192306569|gb|FG997239.1|FG997239
EST:     ACATGGCCATTGATATGATGAAGAAAAACCTTTCAATGATAATTCCTCAG                         ACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG
genomic: ACATGGCCATGGATATGATGAAGAAAAACCTTTCAATGATAATTCCTCAGgtgttaaaat ... tttcccacagACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG
EST: gi|192312658|gb|FK004346.1|FK004346
EST:     ACATGGCCATGGATATGATGAAGAAAAACCTTTCAATGATAATTCCTCAG                         ACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG
genomic: ACATGGCCATGGATATGATGAAGAAAAACCTTTCAATGATAATTCCTCAGgtgttaaaat ... tttcccacagACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG
EST: gi|193632589|gb|FK580521.1|FK580521
EST:     ACATGGCCATGGATATGATGAAGAAAAACCTTTCAATGATAATTCCTCAG                         ACTCTTACTTTTGCTTGGGTGAACTTTTTTCTTTTCTGGATTTGTAGCAGC
genomic: ACATGGCCATGGATATGATGAAGAAAAACCTTTCAATGATAATTCCTCAGgtgttaaaat ... tttcccacagACTCTTACTTTTGCTTGGGTGAACTTTTT-CTTTTCTGGATTTGTAGCAGC
EST: gi|193609755|gb|FK560755.1|FK560755
EST:     ACATGGCCATGGATATGATGAAGAAAAACCTTTCAATGATAATTCCTCAG                         ACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG
genomic: ACATGGCCATGGATATGATGAAGAAAAACCTTTCAATGATAATTCCTCAGgtgttaaaat ... tttcccacagACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG
EST: gi|193451079|gb|FK415693.1|FK415693
EST:     ACATGGCCATGGATATGATGAAGAAAAACCTTTCAATGATAATTCCTCAG                         ACTCTTACTTTTGCTTGGGTGAACTTTT-CTTTTCTGGATTTGTAGCAG
genomic: ACATGGCCATGGATATGATGAAGAAAAACCTTTCAATGATAATTCCTCAGgtgttaaaat ... tttcccacagACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG
EST: gi|192312657|gb|FK004345.1|FK004345
EST:     ACATGGCCATGGATATGATGAAGAAAAACCTTTCAATGATAATTCCTCAG                         ACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG
genomic: ACATGGCCATGGATATGATGAAGAAAAACCTTTCAATGATAATTCCTCAGgtgttaaaat ... tttcccacagACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG
EST: gi|208142885|gb|GD941497.1|GD941497
EST:     ACATGGCCATGGATATGATGAAGAAAAACCTTTCAATGATCATTCCTCAG                         ACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG
genomic: ACATGGCCATGGATATGATGAAGAAAAACCTTTCAATGATAATTCCTCAGgtgttaaaat ... tttcccacagACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG
EST: gi|192323021|gb|FK016752.1|FK016752
EST:     ACATGGCCATGGATATGATGAAGAAAAACCTTTCAATGATAATTCCTCAG                         ACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG
genomic: ACATGGCCATGGATATGATGAAGAAAAACCTTTCAATGATAATTCCTCAGgtgttaaaat ... tttcccacagACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG
EST: gi|192294522|gb|FG987451.1|FG987451
EST:     ACATGGCCATGGATATGATGAAGAAAAACCTTTCAATGATAATTCCTCAG                         ACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG
genomic: ACATGGCCATGGATATGATGAAGAAAAACCTTTCAATGATAATTCCTCAGgtgttaaaat ... tttcccacagACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG
EST: gi|17023264|gb|BM094298.1|BM094298
EST:     ACATGGCCATGGATATGATGAAGAAAAACCTTTCAATGATAATTCCTCAG                         ACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTT
genomic: ACATGGCCATGGATATGATGAAGAAAAACCTTTCAATGATAATTCCTCAGgtgttaaaat ... tttcccacagACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTT
EST: gi|11274440|gb|BF324793.1|BF324793
EST:     ACATGGCCATGGATATGATGAAGAAAAACCTTTCAATGATAATTCCTCAG                         ACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG
genomic: ACATGGCCATGGATATGATGAAGAAAAACCTTTCAATGATAATTCCTCAGgtgttaaaat ... tttcccacagACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG
EST: gi|7588400|gb|AW704196.1|AW704196
EST:     ACATGGCCATGGATATGATGAAGAAAAACCTTTCAATGATAATTCCTCAG                         ACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG
genomic: ACATGGCCATGGATATGATGAAGAAAAACCTTTCAATGATAATTCCTCAGgtgttaaaat ... tttcccacagACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattaggagatgcctcactggcttttacttatgttgttttctattttcccacagACTCTTACTTTTGCTTGGGTGAACTTTTTCTTTTCTGGATTTGTAGCAG
            gcctcac  putative branch site (score: 3)
                                  ttgttttctattttcc  putative PPT
                                  ttgttttctatttt  TA-rich tract