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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgacatatcccttggctacttatttaagctggagtttattatatttatatgcaaatgtttgtataactgtactaaattccaatttcctttcagGTTGGATGGATATATGGTTCTGTTACAGAAGATATATTAACAGGTTTCAAGATGCACTGTCATGGTTGGCGATCCGTGTACTGCATGCCTAAAAGGCCTG

Basic information

species Glycine max
transcript GLYMA10G36790.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G36790.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM5G840940_T01 (Zea mays), 3'ss of exon 3
------------------------------------------------------------gtgtgacatatcccttggctacttatttaagctggagtttattatatttatatgcaaatgtttgtataactgtactaaattccaatttcctttcagGTTGGATGGATATATGGTTCTGTTACAGAAGATATATTAACAGGTTTCAAGATGCACTGTCATGGTTGGCGATCCGTGTACTGCATGCCTAAAAGGCCTG
                                                             |   |  | |   |  ||   | |  |||  || |       |   |   || |||   |   | || ||  |||  ||   ||| ||     ||||||| ||||| ||||| ||||| || || |||||  | || || |||||||||||||| |||||||||||||| |||||||||||||| || || || |
gtaactttggcccatcatgtctttgtttttccttctcccatgtagtttccagatcaggctcttcaaactgtgtttgtgcccttgaaataaattgaaaaactgcaacctagcatccaagaatacttttagcta-actcgatgaaaatatct----agGTTGGTTGGATTTATGGATCTGTCACTGAGGATATCCTCACGGGCTTCAAGATGCACTGCCATGGTTGGCGATCTGTGTACTGCATGCCCAAGAGACCAG

upper sequence: GLYMA10G36790.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv18s0072g00370.t01 (Vitis vinifera), 3'ss of exon 12
gtgtgacatatcccttggctactta-----tttaagctgg---agtttattatatttata-tgcaaatgtttgtataactgta-ctaaattccaatttcc---tt-----tcagGTTGGATGGATATATGGTTCTGTTACAGAAGATATATTAACAGGTTTCAAGATGCACTGTCATGGTTGGCGATCCGTGTACTGCATGCCTAAAAGGCCTG
||  ||   |||  |     | |||     ||  ||||     |||   ||  |   |   || |||  ||| |  | ||||| ||||||||||  ||     ||     ||||||||| ||||||||||| ||||||||||| |||||||||||||| ||||||||||| || |||||||||||||| ||||||||||| || || ||||| |
gtaagaagcatctgtctaaaatttaaaagcttctagcttttccagtcccttccaaacaaggtgtaaactttttttcatctgtatctaaattccagattttgaattatgaatcagGTTGGGTGGATATATGGCTCTGTTACAGAGGATATATTAACAGGATTCAAGATGCAATGCCATGGTTGGCGATCAGTGTACTGCATACCCAAGAGGCCGG
















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|15813294|gb|BI785569.1|BI785569
EST:     TTCATGTCATCAGTTGTGGTTATGAAGATAAGACAGAGTGGGGGAAAGAG                         GTTGGATGGATATATGGTTCTGTTACAGAAGATATATTAACAGGTTTCAAG
genomic: TTCATGTCATCAGTTGTGGTTATGAAGATAAGACAGAGTGGGGGAAAGAGgtgtgacata ... ttcctttcagGTTGGATGGATATATGGTTCTGTTACAGAAGATATATTAACAGGTTTCAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatatttatatgcaaatgtttgtataactgtactaaattccaatttcctttcagGTTGGATGGATATATGGTTCTGTTACAGAAGATATATTAACAGGTTTCAAGATGCACTGTCATGGTTGGCGATCCGTGTACTGCATGCCTAAAAGGCCTG
                               tactaaa  putative branch site (score: 1)
                                      ttccaatttcctttc  CT-rich tract
              aaatgtttgtataa  TA-rich tract