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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactttgtttttatttttacattgttgagacggaactgtttgcttttgttttccttttccattctttgattctgtaacatctatatctagtaatttttaaggttgtatattttctatcatgttacatgagaaattggcaattctgagggttcttccttttcttgttgctcttatttgataaatatgcagGTCATGACTCCAAATCCAGAATGTGTCATAATTGATACACCCATTGTTGATGCACTTCACACTATGCATGATGGGAAATTTTTGCATCTTCCTGTGGTTG

Basic information

species Glycine max
transcript GLYMA04G37370.3
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G37370.3 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G171622_T01 (Zea mays), 3'ss of exon 7
gtactttgtttttatttttacattgttgagacggaactgtttgcttttgttttccttttccattctttgattctgtaacatctatatctagtaatttttaaggttgtatattttctatcatgtta-catgagaaattggcaattctgagggttcttccttttcttgttgctcttatttgataaatatgcagGTCATGACTCCAAATCCAGAATGTGTCATAATTGATACACCCATTGTTGATGCACTTCACACTATGCATGATGGGAAATTTTTGCATCTTCCTGTGGTTG
                                                                                       | |||  | ||||   ||   | | |      |||  | ||     ||||  |  | |  |    ||  |    |    |     ||          |   |||||||||||||  | ||| ||||||| || | | || || || ||| ||||||| |||||||| |||||||||||||||||||| ||| | |||||  | |
--------------------------------------------------------------------------------------gcaagtc-tctttacaattacctttgtatcgctatgcaatcacatttaattatctgtacctactcatcaactaactgccatcatgtttgaaattcctttccacagGTCATGACTCAGAGTCCTGAATGTGCCACAGTGGACACCCCAATTCTTGATGCTCTTCACACAATGCATGATGGGAAATTTTTACATTTGCCTGTCCTGG

upper sequence: GLYMA04G37370.3 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G133621_T01 (Zea mays), 3'ss of exon 4
gtactttgtttttatttttacattgttgagacggaactgtttgcttttgttttccttttccattctttgattctgtaacatctatatctagtaatttttaaggttgtatattttctatcatgttacatgagaaattggcaattctgagggttcttccttttcttgttgctcttatttgataaa----tatgcagGTCATGACTCCAAATCCAGAATGTGTCATAATTGATACACCCATTGTTGATGCACTTCACACTATGCATGATGGGAAATTTTTGCATCTTCCTGTGGTTG
                                                                                   |  ||   ||||  |||    |||   | | |  |||  || ||| |     |  |  |||| |   |     |   |    |   || | || |  |      |   |||||||||||||    ||| ||||||| |    | || || || ||| ||||||| |||||||| ||||||||||| |||||||| ||| | |||||  | |
---------------------------------------------------------------------------------gcaagtcacataataattatctgtgtcattatgcagtcacatttcattattctctacc--ttctcataatctcatcaactaacttacatcatgttcggaactcctttccacagGTCATGACTCAGTGTCCTGAATGTGCCTCGGTAGACACCCCAATTCTTGATGCTCTTCACACAATGCATGATGGAAAATTTTTACATTTGCCTGTTCTGG

upper sequence: GLYMA04G37370.3 (Glycine max), 3'ss of exon 8
lower sequence: Vv17s0000g01200.t01 (Vitis vinifera), 3'ss of exon 8
gtactttgtttttatttttacattgttgagacggaactgtttgcttttgttttccttttccattctttgattctgtaacatctatatctagtaatttttaagg-ttgtatattttctatcatgttacatgagaaattggcaattctgagggttcttccttttcttgttgctcttatttgataaatatgcagGTCATGACTCCAAATCCAGAATGTGTCATAATTGATACACCCATTGTTGATGCACTTCACACTATGCATGATGGGAAATTTTTGCATCTTCCTGTGGTTG
||| ||||| |  |   || |  |||  | |   ||        |  |  | |||||   | ||  | ||     | | |  | | ||   || | | |  |  || |  ||  |  |   | |||      |||  |  |||     |   | |  || |   | |  || || |||  |  || | ||||||||||||||||||||||||||||  | |||||||||||||||||||||||| || || || |||||||||||||||||||| || ||||||||  |||
gta-tttgtctccagcctttc--tgtcaaaataaaatc--caattcgttgtgtccttaaactttgctagaaatgattataaatgtgtcgcctattgtctgtgaattcttcatgataaactctcttatgaacaaaaaggataat-----gacatttaactctgaatataactttt-tttatttcatgttcagGTCATGACTCCAAATCCAGAATGTGCAACAATTGATACACCCATTGTTGATGCCCTACATACCATGCATGATGGGAAATTTTTACACCTTCCTGTCATTG

upper sequence: GLYMA04G37370.3 (Glycine max), 3'ss of exon 8
lower sequence: EFJ25849 (Selaginella moellendorffii), 3'ss of exon 7
gtactttgtttttatttttacattgttgagacggaactgtttgcttttgttttccttttccattctttgattctgtaacatctatatctagtaatttttaaggttgtatattttctatcatgttacatgagaaattggcaattctgagggttcttccttttcttgttgctcttatttgataaatatgcagGTCATGACTCCAAATCCAGAATGTGTCATAATTGATACACCCATTGTTGATGCACTTCACACTATGCATGATGGGAAATTTTTGCATCTTCCTGTGGTTG
                                                                                                                                       |      |   |   |||  |     | |||   ||   |||  |  || | |||||||||||||||||||| ||||| || | | | || ||| ||||||| |||||||| || || ||||| || ||||| ||| | || ||||| ||||| |
--------------------------------------------------------------------------------------------------------------------------------------gtaatctcttataatcttcaacgaaagcctgtacttcagttttactggat-ttcagGTCATGACTCCAAATCCTGAATGCGTTACACTGGAAACAACCATTGTAGATGCACTCCATACCATGCACGACGGGAAGTTTCTTCACCTTCCAGTGGTAG

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|11413123|gb|BF425134.1|BF425134
EST:     TGCGGGTAATTGCACAAAATCTTTCTCCAGAATCAACCCCCGTTGAGAAG                         GTCATGACTCCAAATCCAGAATGTGTCATAATTGATACACCCATTGTTGAT
genomic: TGCGGGTAATTGCACAAAATCTTTCTCCAGAATCAACCCCCGTTGAGAAGgtactttgtt ... aaatatgcagGTCATGACTCCAAATCCAGAATGTGTCATAATTGATACACCCATTGTTGAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggcaattctgagggttcttccttttcttgttgctcttatttgataaatatgcagGTCATGACTCCAAATCCAGAATGTGTCATAATTGATACACCCATTGTTGATGCACTTCACACTATGCATGATGGGAAATTTTTGCATCTTCCTGTGGTTG
                                      atttgat  putative branch site (score: 5)
                                  tcttatttgataaata  TA-rich tract