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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtcagttattaaaagatcaaacatatgcttttcattgtataattctctctttttgtttcaatatggtctttgactctcttacattcatgtattttacagGCTGGTCTATTTGTGTATGACATTTTCTGGGTTTTCTTCACTCCAGTGATGGTTAGCGTTGCAAAATCATTTGATGCTCCAATAAAG

Basic information

species Glycine max
transcript GLYMA06G08620.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G08620.2 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os02g02530.3 (Oryza sativa), 3'ss of exon 6
--agtcagttattaaaagatcaaacatatgcttttcattgtataattctctctttttgtttcaatatggtctttgactctcttacattcatgtattttacagGCTGGTCTATTTGTGTATGACATTTTCTGGGTTTTCTTCACTCCAGTGATGGTTAGCGTTGCAAAATCATTTGATGCTCCAATAAAG
   || |  | |  | | |  |      |||||    |  | |     || || ||   ||   ||  |  | ||  || |     ||| | | |  | |||||||| || ||| | ||||| ||||||||||||||||||||||| || ||||| || |||||||||||||||||||| || ||||||
cctgttatatttgtagaaactattgcactgcttgctgtactttgtaaatcactattaagtt--gtaacgcttatgtatcacgggatttcctttttgattcagGCTGGCCTCTTTTTCTATGATATTTTCTGGGTTTTCTTCACTCCTGTTATGGTCAGTGTTGCAAAATCATTTGATGCACCGATAAAG

upper sequence: GLYMA06G08620.2 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os05g36070.2 (Oryza sativa), 3'ss of exon 7
agtcagttattaaaagatcaaacatatgcttttcattgtataattctctctttttgtttcaatatggtctttgactctctta-cattcatgtattttacagGCTGGTCTATTTGTGTATGACATTTTCTGGGTTTTCTTCACTCCAGTGATGGTTAGCGTTGCAAAATCATTTGATGCTCCAATAAAG
  |     | | ||||  || |  | |      ||  ||||  |        ||| ||    | |    ||||  | || |   ||||   | |  | |||   || || ||| | ||||| ||||||||||| |||||||||||||| ||||| || ||||| || |||||||||||||||||||||
gcttgcgaaattaaagtccatatttgtatacaccaccgtattgtgtaaagcattt-ttaatttgtaacttttgtgtatcgtggtattcccttttaattcagAGCGGACTCTTTTTCTATGATATTTTCTGGGTCTTCTTCACTCCAGTTATGGTCAGTGTTGCCAAGTCATTTGATGCTCCAATAAAG

upper sequence: GLYMA06G08620.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G044348_T04 (Zea mays), 3'ss of exon 7
agtcagttattaaaagatcaaacatatgcttttcat-tgtataattctctcttt-ttgtttcaatatggtctttgactctcttacattcatgtattttacagGCTGGTCTATTTGTGTATGACATTTTCTGGGTTTTCTTCACTCCAGTGATGGTTAGCGTTGCAAAATCATTTGATGCTCCAATAAAG
    | ||      ||  |   ||| |      ||| || || ||| | | ||  ||  ||  ||       |  |  |  ||    |  |   |||| |||| ||| || ||||||||||||||||||||||| |||||||||||||| ||||| || || || ||||| || |||||||||||||||
--gtaattggggctagcccttgcattttgagagcatctgaattattttatgttcattaattacattcatatgtaaatgcatttttccttttcctttttccagGGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATGGTCAGTGTGGCTAAATCTTTCGATGCTCCAATAAAG

upper sequence: GLYMA06G08620.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G150251_T01 (Zea mays), 3'ss of exon 7
-agtcagttattaaaagatcaaacatatgcttttcattgtataattctctctttttgtttcaatatggtctttgactctcttacattcatgtattttacagGCTGGTCTATTTGTGTATGACATTTTCTGGGTTTTCTTCACTCCAGTGATGGTTAGCGTTGCAAAATCATTTGATGCTCCAATAAAG
 |||   ||  |   |  |    ||      |  || || || ||||||| ||  |  ||  ||       |  |  |  ||    |  |  ||||  |||| ||| || ||||||||||||||||||||||| |||||||||||||| ||||| || || || ||||| ||||||||||| ||||||
gagttgatttcttctacttgtttcaacattgtgccagtgaatcattctctgttcattattacatgcatatgtgaatgcaattgtccttttccatttc-cagGGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATGGTCAGTGTGGCTAAATCTTTTGATGCTCCTATAAAG

upper sequence: GLYMA06G08620.2 (Glycine max), 3'ss of exon 7
lower sequence: AT2G03120.1 (Arabidopsis thaliana), 3'ss of exon 6
--------------------agtcagttattaaaagatcaaacatatgcttttcattgtataattctctctttttgtttcaatatggtctttgactctcttacattcatgtattttacagGCTGGTCTATTTGTGTATGACATTTTCTGGGTTTTCTTCACTCCAGTGATGGTTAGCGTTGCAAAATCATTTGATGCTCCAATAAAG
                    |  |  || || |||  |      |   ||| |   || | |      || |||       |     || ||   | | |   || | ||    || ||||| || |||||| | ||||| || |||||||||||||| |||||||| |||||||| ||||| ||||| || ||||||||||| |||
gtaagaactgcatcttttgaatgctattcttgaaaacttg--tttggacttctagatgaaaagaaaattcgtttgaaaatgactcaatcattcggtgtttgttatgcttga--cttgcagGCAGGACTATTTTTCTATGATATCTTCTGGGTTTTCTTTACTCCAGTTATGGTTAGTGTTGCCAAATCCTTCGATGCTCCAATTAAG

upper sequence: GLYMA06G08620.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv06s0009g03520.t01 (Vitis vinifera), 3'ss of exon 7
----agtcagt-tattaaaagatcaaacatatgcttttcattgtataattctctctttttgtttcaatatggtctttgactctcttacattcatgtattttacagGCTGGTCTATTTGTGTATGACATTTTCTGGGTTTTCTTCACTCCAGTGATGGTTAGCGTTGCAAAATCATTTGATGCTCCAATAAAG
     | |||| | ||      ||| |  ||||| | |   || ||     | | ||| |  ||| |  || | ||||||     |   | | ||    || ||||| || || ||||| ||||| ||||||||||| |||||||||||||||||||| || |||||||| || || |||||||| || |||
ttgatgccagtatttttgtccctcatatctatgcctgttcctgcatt-cagtttgtttgtacttctaagtgatttttgaca----tgggtacttgcgaattgcagGCAGGACTTTTTGTTTATGATATTTTCTGGGTCTTCTTCACTCCAGTGATGGTCAGTGTTGCAAAGTCCTTCGATGCTCCTATTAAG

upper sequence: GLYMA06G08620.2 (Glycine max), 3'ss of exon 7
lower sequence: EFJ18240 (Selaginella moellendorffii), 3'ss of exon 6
agtcagttattaaaagatcaaacatatgcttttcattgtataattctctctttttgtttcaatatggtctttgactctcttacattcatgtattttacagGCTGGTCTATTTGTGTATGACATTTTCTGGGTTTTCTTCACTCCAGTGATGGTTAGCGTTGCAAAATCATTTGATGCTCCAATAAAG
                                     |||   |  || |||       ||| |   |   ||| |   || |  ||      |   ||||| || ||||| || |||||||| |||||||| ||||||||||| |||||||| | |||||| || || ||||||||||| || |||
-------------------------------------gtaccgtgttcacttacaaaa-caacact-ttgatgatttgttttctctctctgtctcgccagGCCGGGCTATTCGTATATGACATCTTCTGGGTATTCTTCACTCCTGTGATGGTCACCGTTGCGAAGTCCTTTGATGCTCCCATCAAG

upper sequence: GLYMA06G08620.2 (Glycine max), 3'ss of exon 7
lower sequence: EFJ21978 (Selaginella moellendorffii), 3'ss of exon 6
agtcagttattaaaagatcaaacatatgcttttcattgtataattctctctttttgttt--caatatggtctttgactctcttacattcatgtattttacagGCTGGTCTATTTGTGTATGACATTTTCTGGGTTTTCTTCACTCCAGTGATGGTTAGCGTTGCAAAATCATTTGATGCTCCAATAAAG
                                     |||   |  || |||         || | || || ||   | |||    |   |||  |   ||||| || ||||| || |||||||| |||||||| ||||||||||| |||||||| | |||||| || || ||||||||||| || |||
-------------------------------------gtaccgtgttcacttacaaaacaacactttgatcattcgttttctc---tctctgt-ctcgccagGCCGGGCTATTCGTATATGACATCTTCTGGGTATTCTTCACTCCTGTGATGGTCACCGTTGCGAAGTCCTTTGATGCTCCCATCAAG

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|6072670|gb|AW102057.1|AW102057
EST:     AATTGAAATGCTTTCTTCTTGG-TCTTTCAAGACTGGTGCTATTCTCTTG                         GCTGGTCCTATTT-TGTATGACATT
genomic: AATTGAAATGCTTTCT-CTTGGGTCTTTCAAGACTGGTGCTATTCTCTTGgtaggtgttt ... tattttacagGCTGGTC-TATTTGTGTATGACATT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctctttttgtttcaatatggtctttgactctcttacattcatgtattttacagGCTGGTCTATTTGTGTATGACATTTTCTGGGTTTTCTTCACTCCAGTGATGGTTAGCGTTGCAAAATCATTTGATGCTCCAATAAAG
                               ctcttac  putative branch site (score: 3)
     tttttgtttcaatat  TA-rich tract