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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcttgggttttttactttttttttttttttgtacctctctaatctggactaattttctcccatccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTTGGAACAAAACTTG

Basic information

species Glycine max
transcript GLYMA12G03660.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G03660.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM5G846811_T01 (Zea mays), 3'ss of exon 3
-------------gtaagcttgggt---tttttactttttttttttttttgtacctctctaatctg-----gactaattttc--tcccatccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTTGGAACAAAACTTG
             ||   |     |   |||||   |    ||  | |   |  ||| | ||  |        || | | |    ||| ||  | | |||||||| |||||  ||| ||||||||| |||||||| ||||||||||| || || ||||| ||||
gtgtactgaaacagttctccaaaatccatttttgaataggattaatatagatggctcccaaactttttgtttgctgactctgaaccccttctattttcagTGGATACCTGAACTGAAGCATTATGCACCTGGTGTGCCAATTATTCTCGTAGGGACAAAGCTTG

upper sequence: GLYMA12G03660.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv03s0038g02380.t01 (Vitis vinifera), 3'ss of exon 4
----------------gtaagcttgggttttttactttttttttttttttgta--------cctctctaatctggact-------aattttctcc--------catccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTTGGAACAAAACTTG
                 || |   |  |||||| ||||||| |   |  || |         ||   |||| |||  |       |||| | |            ||| | | ||||||||||||||||||||||||||||| || ||||||||||| |||||||| || ||||| ||||
gtaagtttggcttctactatgagagatttttttccttttttctccctcctgcaacatgtcgtctggttaatatggtttgctgataaattctttatgtgctctgtttccatattcagTGGATTCCTGAGTTGAGGCATTATGCACCCGGTGTTCCAATAATTCTTGTCGGGACAAAGCTTG
















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|298171505|gb|HO016537.1|HO016537
EST:     TCGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... ccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|58014286|gb|CX701028.1|CX701028
EST:     TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... ccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|58020948|gb|CX707690.1|CX707690
EST:     TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... ccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|151401174|gb|EV270988.1|EV270988
EST:     TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... ccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|151405308|gb|EV275122.1|EV275122
EST:     TTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... ccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|18039985|gb|BM308279.1|BM308279
EST:     TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... ccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|308222701|gb|HO760611.1|HO760611
EST:     TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... ccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|58021197|gb|CX707939.1|CX707939
EST:     TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... ccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|298170161|gb|HO018785.1|HO018785
EST:     TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... ccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|192329144|gb|FK021131.1|FK021131
EST:     TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... ccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|298172850|gb|HO019834.1|HO019834
EST:     TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... ccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttttttttttgtacctctctaatctggactaattttctcccatccttgtccagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTTGGAACAAAACTTG
                            gactaat  putative branch site (score: 2)
                                  ttttctcccatccttg  CT-rich tract
     tttttttgta  TA-rich tract