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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttacttctttctctcaattaggacggtgatattttaaatcaatttctgcactcagtatgatatgactgattaagttattgttcttttggtttcttctttcagTGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTTGGAACAAAGTTAG

Basic information

species Glycine max
transcript GLYMA06G02580.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G02580.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM5G803949_T02 (Zea mays), 3'ss of exon 3
gtttacttctttctctcaattaggacggtgatattttaaatcaatttctgcactcagtatgat------atgactgattaagttattgtt------cttttggtttcttct---ttcagTGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTTGGAACAAAGTTAG
                 | |    ||  |||| |   ||||||| || |  | |  |  | ||      ||| ||    || || |||||      || |      ||| |   |||||||||| |||||||| | ||||||||| |||||||| |||||||||||||| || |||||| | |
-----------------agtggaaac--tgatgtccaaaatcaaatttttgaataggattaatccatagatggcttccaaacttcttgtttgctgactctgaaccccttttattttcagTGGATACCTGAACTGAAGCATTATGCACCTGGTGTGCCAATAATTCTCGTAGGGACAAAGCTTG

upper sequence: GLYMA06G02580.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM5G846811_T01 (Zea mays), 3'ss of exon 3
gtttacttctttctctcaattaggacggtgatattttaaatcaatttctgcac----tcagtatgatatgactgattaagttattgtt------cttttggtttcttct---ttcagTGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTTGGAACAAAGTTAG
               |  | |   || ||  | |   ||||| |||| || |     | | |||   ||| ||    || || |||||      || |      |||||   |||||||||| |||||||| | ||||||||| |||||||| ||||| |||||||| || |||||| | |
--------------gtgtactgaaacagt--tctccaaaatccatttttgaataggattaatatag-atggctcccaaactttttgtttgctgactctgaaccccttctattttcagTGGATACCTGAACTGAAGCATTATGCACCTGGTGTGCCAATTATTCTCGTAGGGACAAAGCTTG

upper sequence: GLYMA06G02580.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv18s0001g14670.t01 (Vitis vinifera), 3'ss of exon 3
gtttacttctttctctcaattaggacggtgatattttaaatcaatttctgcactcagtatg-atatgactgattaagt-tattgttcttttggtttcttctttcagTGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTTGGAACAAAGTTAG
         || |     |||  | |    || ||| |      || ||   || | | |  | |   ||||| || | | || |||||||| ||||   ||||||||||| |||||||| ||||||||||| |||||||||||||||||||| |||||||| ||| | |
--------gttgccacttatttagtctcctatttttcattatttttccttgtctaaatttacagaatgctgataaattgttttcttcttttgatttcaa-tttcagTGGATTCCTGAACTGAGGCATTATGCACCTGGTGTTCCAATAATTCTTGTTGGAACCAAGCTTG

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|31561454|gb|CD487292.1|CD487292
EST:     TTGCCTTTTCTCTCATAAGCAAGGCTAGCTATGAAAATATTGCAAAGAAG                         TGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTT
genomic: TTGCCTTTTCTCTCATAAGCAAGGCTAGCTATGAAAATATTGCAAAGAAGgtttacttct ... cttctttcagTGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTT
EST: gi|4396727|gb|AI495724.1|AI495724
EST:     TTGCCTTTTCTCTCATAAGCAAGGCTAGCTATGAAAATATTGCAAAGAAG                         TGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTT
genomic: TTGCCTTTTCTCTCATAAGCAAGGCTAGCTATGAAAATATTGCAAAGAAGgtttacttct ... cttctttcagTGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTT
EST: gi|120533487|gb|EH261620.1|EH261620
EST:     TTGCCTTTTCTCTCATAAGCAAGGCTAGCTATGAAAATATTGCCAAGAAG                         TGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTT
genomic: TTGCCTTTTCTCTCATAAGCAAGGCTAGCTATGAAAATATTGCAAAGAAGgtttacttct ... cttctttcagTGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTT
EST: gi|4313831|gb|AI460950.1|AI460950
EST:     TTGCCTTTTCTCTCATAAGCAAGGCTAGCTATGAAAATATTGCAGAGAAG                         TGGATCCCTGAACTAAGGCATTATGCCCCCTGGTGTTCCAATAANTTCTCG
genomic: TTGCCTTTTCTCTCATAAGCAAGGCTAGCTATGAAAATATTGCAAAGAAGgtttacttct ... cttctttcagTGGATCCCTGAACTAAGGCATTATGCCCC-TGGTGTTCCAATAA-TTCTCG
EST: gi|298164350|gb|HO013995.1|HO013995
EST:     TTGCCTTTTCTCTCGTAAGCAAGGCTAGCTATGAAAATATTGCAAAGAAG                         TGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTT
genomic: TTGCCTTTTCTCTCATAAGCAAGGCTAGCTATGAAAATATTGCAAAGAAGgtttacttct ... cttctttcagTGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTT
EST: gi|16348169|gb|BI973764.1|BI973764
EST:     TTGCCTTTTCTCTCATAAGCAAGGCTAGCTATGAAAATATTGCAAAGAAG                         TGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTT
genomic: TTGCCTTTTCTCTCATAAGCAAGGCTAGCTATGAAAATATTGCAAAGAAGgtttacttct ... cttctttcagTGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTT
EST: gi|10845271|gb|BF068427.1|BF068427
EST:     TTGCCTTTTCTCTCATAAGCAAGGCTAGCTATGAAAATATTGCAAAGAAG                         TGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTT
genomic: TTGCCTTTTCTCTCATAAGCAAGGCTAGCTATGAAAATATTGCAAAGAAGgtttacttct ... cttctttcagTGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTT
EST: gi|6483101|gb|AW202293.1|AW202293
EST:     TTGCCTTTTCTCTCATAAGCAAGGCTAGCTATGAAAATATTGCAAAGAAG                         TGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTN
genomic: TTGCCTTTTCTCTCATAAGCAAGGCTAGCTATGAAAATATTGCAAAGAAGgtttacttct ... cttctttcagTGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTT
EST: gi|19269284|gb|BM885540.1|BM885540
EST:     TTGCCTTTTCTCTCATAAGCAAGGCTAGCTATGAAAATATTGCAAAGAAG                         TGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTT
genomic: TTGCCTTTTCTCTCATAAGCAAGGCTAGCTATGAAAATATTGCAAAGAAGgtttacttct ... cttctttcagTGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTT
EST: gi|17021451|gb|BM092485.1|BM092485
EST:     TTGCCTTTTCTCTCATAAGCAAGGCTAGCTATGAAAATATTGCAAAGAAG                         TGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTT
genomic: TTGCCTTTTCTCTCATAAGCAAGGCTAGCTATGAAAATATTGCAAAGAAGgtttacttct ... cttctttcagTGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTT
EST: gi|19052868|gb|BM731535.1|BM731535
EST:     TTGCCTTTTCTCTCATAAGCAAGGCTAGCTATGAAAATATTGCAAAGAAG                         TGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTT
genomic: TTGCCTTTTCTCTCATAAGCAAGGCTAGCTATGAAAATATTGCAAAGAAGgtttacttct ... cttctttcagTGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcactcagtatgatatgactgattaagttattgttcttttggtttcttctttcagTGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTTGGAACAAAGTTAG
                gactgat  putative branch site (score: 3)
                              ttgttcttttggtttc  putative PPT
                     attaagttattgtt  TA-rich tract