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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattactgttaataccaagtgttatttcatatattaatcgttgttcgttttattgttgtctgagttgtgtttcccttcttaagTGTTACATGAGACAGCTTTTGACTGGGCTTCACTATTGTCATGTAAATCAAGTACTTCATCGTGATATCAAAG

Basic information

species Glycine max
transcript GLYMA14G04410.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G04410.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G019267_T02 (Zea mays), 3'ss of exon 5
gtattactgtt--aatacca--agtg--ttatttcatatat-taatcgttgttcgttttatt--gttgtct-gagttgtgtttcccttcttaagTGTTACATGAGACAGCTTTTGACTGGGCTTCACTATTGTCATGTAAATCAAGTACTTCATCGTGATATCAAAG
|||   || |   | ||||   ||||  ||  ||   || | | || ||| |     | ||    |  ||| | | || ||   | |  |  ||||||||||||| |||||  | || || || |||||||||||||| || ||||| || ||||| ||||||||||
gtacacctatccaagtacctgcagtgctttgcttaggatgtgtcatggttttatccctgatgaaatgatcttgtgatgcgtggtcttgttctagTGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAAGTTCTGCATCGAGATATCAAAG

upper sequence: GLYMA14G04410.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv06s0009g01800.t01 (Vitis vinifera), 3'ss of exon 6
gtattactgttaataccaagtgtta-tttcatata-ttaatcgttgttcgttttattgttgtctgagttg-tgtttcccttctta-----------------agTGTTACATGAGACAGCTTTTGACTGGGCTTCACTATTGTCATGTAAATCAAGTACTTCATCGTGATATCAAAG
|||| ||   |||    ||   ||  ||||| ||| |||||  |  | | |  | |   | |||   ||  |  | ||| ||||                  ||||||| ||||| ||||||||||| ||||||||||| ||||||||||||||||| |||||||| ||||||||||
gtatcacaaataacctgaaaaatttctttcagataattaatgatgatgcttgatctctctctctcccttcctcctccccctcttcctcatcctgctgcttccagTGTTATATGAGGCAGCTTTTGACGGGGCTTCACTACTGTCATGTAAATCAAGTTCTTCATCGGGATATCAAAG
















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|19348210|gb|BM892742.1|BM892742
EST:     CAGGTCTTGCTGACCGACCTGGGATGAGATTTACAGTTCCCCAAATTAAG                         TGTTACATGAGACAGCTTTTGACTGGGCT
genomic: CAGGTCTTGCTGACCGACCTGGGATGAGATTTACAGTTCCCCAAATTAAGgtattactgt ... ccttcttaagTGTTACATGAGACAGCTTTTGACTGGGCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatattaatcgttgttcgttttattgttgtctgagttgtgtttcccttcttaagTGTTACATGAGACAGCTTTTGACTGGGCTTCACTATTGTCATGTAAATCAAGTACTTCATCGTGATATCAAAG
   tattaat  putative branch site (score: 2)
                                    ttgtgtttcccttctt  putative PPT
                   ttttattgtt  TA-rich tract