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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgactttagttcattagggataagtggttcatatagtagttgtattgctttcaaatacatcattgggctaacctcatcacatggccattctctgcagCTTTTCTTGCTTCGAGCTGCTGGTTTTCTTTTACCTTGCTATATCATGGCTTGGGCAATCAGTATTTTGCAACGCCGGCGACAAAGACAA

Basic information

species Glycine max
transcript GLYMA07G35750.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G35750.2 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os11g38800.1 (Oryza sativa), 3'ss of exon 6
-------------------gtgagtgactttagttcattagggataagtggttcatatagtagttgtattgctttcaaatacatcattgggctaacctcatcacatggccattctctgcagCTTTTCTTGCTTCGAGCTGCTGGTTTTCTTTTACCTTGCTATATCATGGCTTGGGCAATCAGTATTTTGCAACGCCGGCGACAAAGACAA
                      | |   ||||  | ||| |   |   ||      ||  |   |  |     ||    ||||| | |         | |        | ||   |  ||||| ||  | |||||||||||||| |||||  | || ||||||||||||||||||  | ||||||||||||| ||||||||||||||||| 
gttagtcttgtgttccttccccactttttttatcttattggttctttctgagctcaatgttgacttaaaaatctttttttacatgacttaaaatctattaatgttcttcaatgtccaacagCTCTTTCTACTTCGAGCTGCTGGATTTCTGCTGCCATGCTATATCATGGCTTGGATATTCAGTATTTTGCATCGCCGGCGACAAAGACAG

upper sequence: GLYMA07G35750.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G303431_T01 (Zea mays), 3'ss of exon 6
gtgagtgactttagttcattagggataagtggttcatatagtagttgtattgctttcaaatacatcattgggctaacctcatcacatggccattctctgcagCTTTTCTTGCTTCGAGCTGCTGGTTTTCTTTTACCTTGCTATATCATGGCTTGGGCAATCAGTATTTTGCAACGCCGGCGACAAAGACAA
             ||   | ||   || |   ||||| | ||| ||| || | |  |         ||||  ||  ||| |        | |  |||||||||||||  |||||||||||||||| |||||  | || ||||| |||||||| |||  | ||||||||||||| ||||| ||||||||||| 
-------------gtgagtgagatgta-gcctttcattt-gtacttggat-gttagcggtccagatattgctctgtcctgact------cgaccctctgcagCTTTTTCTGCTTCGAGCTGCTGGGTTTCTGCTGCCGTGCTACATCATGGCATGGATATTCAGTATTTTGCATCGCCGTCGACAAAGACAG

upper sequence: GLYMA07G35750.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G113619_T04 (Zea mays), 3'ss of exon 8
gtgagtgactttagttcattagggataagtggttcatatagtagttgtattgctttcaaatacatcattgggctaacctcatcacatggccattctctgcagCTTTTCTTGCTTCGAGCTGCTGGTTTTCTTTTACCTTGCTATATCATGGCTTGGGCAATCAGTATTTTGCAACGCCGGCGACAAAGACAA
                  | || ||  | |        |   |  | ||||| |  ||| |  || ||    ||    |  | |   |       |    |||||||  || | || ||||||||||| ||  | || | ||| ||||||||||||||||||||||| ||||| |||||  |||| ||||| 
-----------------gtaagtga--aataaccatcttgaaaaatatattgttggcaa-tgtataataacacttgtttttttaatggtttgcaattgaaagCTTTTTCTGTTGCGTGCTGCTGGTTTCCTGCTTCCGTTCTACATCATGGCTTGGGCAATCAGTATCTTGCAGCGCCGCAGACAGAGACAG

upper sequence: GLYMA07G35750.2 (Glycine max), 3'ss of exon 5
lower sequence: AT2G02960.2 (Arabidopsis thaliana), 3'ss of exon 6
gtgag-tgactttagttcattagggataagtggttcatatagtagttgtattgctttcaaatacatcattgggctaacctcatcacatggcc--attctc--tgcagCTTTTCTTGCTTCGAGCTGCTGGTTTTCTTTTACCTTGCTATATCATGGCTTGGGCAATCAGTATTTTGCAACGCCGGCGACAAAGACAA
|| || | | |  || |  ||     |   |  ||| | || |  |||| |   || ||  ||  |  |    | || | ||  | || | |  |||||   |  ||||| || |||| ||||||||||| |||||| | || |||||||||||||||||||| ||||||||| | || |||||  |||| ||||| 
gtaagctcattgaagcttcttccttttttctttttcttttattttttgtctcagttgcatttaagttgtaacaccaaac-cacaaaattgtctgattcttattttagCTTGTCCTGCTCCGAGCTGCTGGATTTCTTCTTCCATGCTATATCATGGCTTGGGCCATCAGTATTCTACAGCGCCGAAGACAGAGACAG

upper sequence: GLYMA07G35750.2 (Glycine max), 3'ss of exon 5
lower sequence: AT1G14260.2 (Arabidopsis thaliana), 3'ss of exon 6
gtgagtgactttagttcattagggataagtggttcatatagtagttgtattgctttcaaatacatcattgggctaacctcatcacatggccattctctgcagCTTTTCTTGCTTCGAGCTGCTGGTTTTCTTTTACCTTGCTATATCATGGCTTGGGCAATCAGTATTTTGCAACGCCGGCGACAAAGACAA----------
|| ||| |||     |   |       ||     |||||| | |    |    ||||  |||  |  |    | ||    | ||||    |||  |  |||||||||||| || ||||||||  |||||||| | |||||||| |||||||| |  || ||||||||  |||| |||||  |||| |||||           
gtaagttactacttcttccttttttccag-----catatactgg----aaaagtttcgtataagttctaactccaa----accacaaaatcatctt--gcagCTTTTCTTACTCCGAGCTGCCAGTTTTCTTCTTCCTTGCTACATCATGGCATCAGCCATCAGTATCCTGCATCGCCGTAGACAGAGACAGGAAGCAGCGG

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|15203126|gb|BI425894.1|BI425894
EST:     TTTCTGTCACAGATTCTGAAGCTGAAGATGATCCATCCACTTTTTTCTCT                         CTTTTCTTGCTTCGAGCTGCTGGTTTTCTTTTACCTTGCTATATCATGGCT
genomic: TTTCTGTCACAGATTCTGAAGCTGAAGATGATCCATCCACTTTTTTCTCTgtgagtgact ... ttctctgcagCTTTTCTTGCTTCGAGCTGCTGGTTTTCTTTTACCTTGCTATATCATGGCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattgctttcaaatacatcattgggctaacctcatcacatggccattctctgcagCTTTTCTTGCTTCGAGCTGCTGGTTTTCTTTTACCTTGCTATATCATGGCTTGGGCAATCAGTATTTTGCAACGCCGGCGACAAAGACAA
                       ggctaac  putative branch site (score: 2)
                                          ccattctct  putative PPT
      tttcaaata  TA-rich tract