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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattctgattttttcttcagcaatttcttttataactaaaattactaaacttaaggtttgaaagattccattttacacccttaatttctctaatatctatgtatactgtaacttgcagCATTGCGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAG

Basic information

species Glycine max
transcript GLYMA08G20830.3
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G20830.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G069631_T02 (Zea mays), 3'ss of exon 2
gtaattctgattttttcttcagcaatttcttttataactaaaattactaaacttaaggtttgaaagattccat-tttacacccttaatttctctaatatctatgtatactgtaacttgcagCATTGCGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAG
                                       |    |||   |  |||| | |  ||  || | |  ||| | |     |  |  || |    ||||||         ||||| || ||   || || ||  ||||| |||||   || |||  | ||  ||| ||||||||||||||||| || || || |||||||||||||| ||||||
------------------------------------gtaagtgctacactatataagttctataatctttcttgcttaaatctcgtgtgcccatagtgctaatgtatg--------tgcagAAT-GCTTGTCGAGGAGA-ACTTG-AGAGGCAAGAATATCTTGTTTCTAGGCATCCTGAGTTCCGTTACAAGACCGAATTTCAGAGTCATGAACCTGAG

upper sequence: GLYMA08G20830.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 4
gtaattctgattttttcttcagcaatttcttttataactaaaattactaaacttaaggtttgaaagattccattttacacccttaatttctctaatatctatgtatactgtaacttgcagCATTGCGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAG
                                |||  | |   |  ||     |    |||   | ||   ||||    |  ||   || | |  | |   || || ||||   || |||    | ||| | ||||| ||  | ||       || ||| | | |   || ||||| ||||| ||||||||||||||||||||||||||||| ||||||
-------------------------------gtatgtccactttaccttgtaatcgtttttctgatatgggatttggatcattttggttatatgttgttgttgcatgctgtggattacagAGCAGTGGAACCAGAAGAGAGCTTGAAGAAGCTGATTAT-CCACTG--AGGCATCCAGAGTTTCGTTATAAAACAGAGTTTCAGAGTCATGACCCTGAG

upper sequence: GLYMA08G20830.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 2
gtaattctgattttttcttcagcaatttcttttataactaaaattactaaacttaaggtttgaaagattccattttacacccttaatttctctaatatctatgtatactgtaacttgcagCATTGCGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAG
                     |  | ||| ||| |         | | | | ||  | || |||| | |   || |   |  | |    ||||        || | | ||| |||| |||||| | || || || | |||  | |||  || ||| ||  |  ||||    ||||||||||| || ||||||||||| |||||||||||||| || |||
---------------------gtgagttcctttttcttc-----tgcaagattt--gtttcgaaaaaat--gttatgtgctgtaacgcactct--------tgcaaaatgttactttcagCATGGAGGGTCCAGGAAGGATCTTGAGCAGACGGATTACCCAGTTAG---GCATCCTGAGTTTCGATATAAAACAGAATTTCAGAGTCATGAACCAGAG

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|208177685|gb|GD974838.1|GD974838
EST:     GTGATCGTGGTGGTCGAGTAGTTCTCTTTGAGCGGACAGATACAAAAGAT                         CATCACGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGA
genomic: GTGATCGTGGTGGTCGAGTAGTTCTCTTTGAACGGACAGATACAAAAGATgtaattctga ... taacttgcagCATTGCGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGA
EST: gi|193304649|gb|FK272694.1|FK272694
EST:     GTGATCGTGGTGGTCGAGTAGTTCTCTTTGAGCGGACAGATACAAAAGAT                         CATCACGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGA
genomic: GTGATCGTGGTGGTCGAGTAGTTCTCTTTGAACGGACAGATACAAAAGATgtaattctga ... taacttgcagCATTGCGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGA
EST: gi|7690859|gb|AW758996.1|AW758996
EST:     GTGATCGTGGTGGTCGAGTAGTTCTCTTTGAACGGACAGATACAAAAGAT                         CATTGCGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGA
genomic: GTGATCGTGGTGGTCGAGTAGTTCTCTTTGAACGGACAGATACAAAAGATgtaattctga ... taacttgcagCATTGCGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGA
EST: gi|193647235|gb|FK588402.1|FK588402
EST:     GTGATCGTGGTGGTCGAGTAGTTCTCTTTGAGCGGACAGATACAAAAGAT                         CATCACGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGA
genomic: GTGATCGTGGTGGTCGAGTAGTTCTCTTTGAACGGACAGATACAAAAGATgtaattctga ... taacttgcagCATTGCGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGA
EST: gi|208151571|gb|GD950412.1|GD950412
EST:     GTGATCGTGGTGGTCGAGTAGTTCTCTTTGAGCGGACAGATACAAAAGAT                         CATCACGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGA
genomic: GTGATCGTGGTGGTCGAGTAGTTCTCTTTGAACGGACAGATACAAAAGATgtaattctga ... taacttgcagCATTGCGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGA
EST: gi|308099093|gb|HO760934.1|HO760934
EST:     GTGATCGTGGTGGTCGAGTAGTTCTCTTTGAACGGACAGATACAAAAGAT                         CATTGCGGATCCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAG
genomic: GTGATCGTGGTGGTCGAGTAGTTCTCTTTGAACGGACAGATACAAAAGATgtaattctga ... taacttgcagCATTGCGGAT-CAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattccattttacacccttaatttctctaatatctatgtatactgtaacttgcagCATTGCGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAG
                                          ctgtaac  putative branch site (score: 3)
                 ttaatttctctaatat  TA-rich tract