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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgacgttaaatactgttactgattttgtttgttagactatgtgatgctattgctaataagaaactatattttccagATTACCAGATGGTTCGCTGATGGAGATTACCAAAGTTTATCCATTGGATGCAGTTTTTGACAATCTTGATGATGTGCCAGAAGAT

Basic information

species Glycine max
transcript GLYMA11G10770.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G10770.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os09g10600.1 (Oryza sativa), 3'ss of exon 4
--------------------------gtatgacgttaaatactgt---tactgattttgtttgttagactatgtgatgctattgctaataagaaactatatt--ttccagATTACCAGATGGTTCGCTGATGGAGATTACCAAAGTTTATCCATTGGATGCAGTTTTTGACAATCTTGATGATGTGCCAGAAGAT
                           | | | |||   |   ||   |     | ||   || | || |   | ||  | |   |  |     ||||  ||  || |||  | || ||||| || || ||||||||||| ||||| || |||||||||||||||||||||  || ||| ||||| || || |||
gtgtgttcctaagtgtacttgcagttatttaatgttttgtgtagtccatttcagtgttccatgctggaatg-attatcatctccatggtgtctgactacctttgttgcagGCTTCCTGATGGATCTCTTATGGAGATTACAAAAGTCTACCCATTGGATGCAGTTTTTGACTCTCCTGAGGATGTTCCTGATGAT

upper sequence: GLYMA11G10770.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G05990.2 (Arabidopsis thaliana), 3'ss of exon 4
gtatgacgttaaatactgttactgattttgtttgttagactatgtgatgctattgctaataagaaactatattttccagATTACCAGATGGTTCGCTGATGGAGATTACCAAAGTTTATCCATTGGATGCAGTTTTTGACAATCTTGATGATGTGCCAGAAGAT---------------
||| |   ||| |   || |  ||  | || || |||    ||| ||   || |  |   |   |  ||||||   ||| || || || || ||  ||||||||||||  || |||||| | |||||||| || |||||||||| ||| |||||||| ||||||               
gtaaggacttacaacatgatcttg--tctggtt-ttatgtaatgggacattaatttttccatccatgtatatt---cagGTTGCCTGACGGGTCATTGATGGAGATTAAGAAGGTTTATGCTTTGGATGCTGTGTTTGACAATCCTGAAGATGTGCCTGAAGATGTGAAAACGAATAAG

upper sequence: GLYMA11G10770.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv06s0004g01310.t01 (Vitis vinifera), 3'ss of exon 4
gtatgacgttaaat----actgttactgattttgtttgt---tagactatgtgatgctattgctaataagaaactatattttccagATTACCAGATGGTTCGCTGATGGAGATTACCAAAGTTTATCCATTGGATGCAGTTTTTGACAATCTTGATGATGTGCCAGAAGAT
||| || |||| |       |  |    | |||   ||    || || |   |  |    | || ||   |   |  || ||  || || |||||||||||  |||||||||| |||||| | ||||| ||||||||||||| |||||  ||||| ||||| || ||||||
gtaagatgttagacttaggtttctgtcaaatttaaatgggaataaacaaaaagtgggctcttctgatggaatgtttaatgttttagGTTGCCAGATGGTTCTTTGATGGAGATCACCAAAATATATCCTTTGGATGCAGTTTATGACACCCTTGAGGATGTACCTGAAGAT

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|298166168|gb|HO009139.1|HO009139
EST:     AATATTTTTGAGTCCAGCCTACGGCGTGGAAAGTTTGACGAATCACGCGT                         ATTACCAGATGGTTCGCTGATGGAGAT
genomic: AATATTTTTGAGTCCAGCCTACGGCGTGGAAAGTTTGACGAATCACGCGTgtatgacgtt ... tattttccagATTACCAGATGGTTCGCTGATGGAGAT
EST: gi|9986202|gb|BE660310.1|BE660310
EST:     AATATTTTTGAGTCCAGCCTACGGCGTGGAAAGTTTGACGAATCACGCGT                         ATTACCAGATGGTTCGCTGATGGAGATTACCAAAGTTTATCCATTGGATGC
genomic: AATATTTTTGAGTCCAGCCTACGGCGTGGAAAGTTTGACGAATCACGCGTgtatgacgtt ... tattttccagATTACCAGATGGTTCGCTGATGGAGATTACCAAAGTTTATCCATTGGATGC
EST: gi|192307619|gb|FG999658.1|FG999658
EST:     AATATTTTTGAGTCCAGCCTACGGCGTGGAAAGTTTGACGAATCACGCGT                         ATTACCAGATGGTTCGCTGATGGAGATTACCAAAGTTTATCCATTGGATGC
genomic: AATATTTTTGAGTCCAGCCTACGGCGTGGAAAGTTTGACGAATCACGCGTgtatgacgtt ... tattttccagATTACCAGATGGTTCGCTGATGGAGATTACCAAAGTTTATCCATTGGATGC
EST: gi|7796512|gb|AW781909.1|AW781909
EST:     AATATTTTTGAGTCCAGCCTACGGCGTGGAAAGTTTGACGAATCACGCGT                         ATTACCAGATGGTTCGCTGATGGAGATTACCAAAGTTTATCCATTGGATGC
genomic: AATATTTTTGAGTCCAGCCTACGGCGTGGAAAGTTTGACGAATCACGCGTgtatgacgtt ... tattttccagATTACCAGATGGTTCGCTGATGGAGATTACCAAAGTTTATCCATTGGATGC
EST: gi|15204411|gb|BI427179.1|BI427179
EST:     AATATTTTTGAGTCCAGCCTACGGCGTGGAAAGTTTGACGAATCACGCGT                         ATTACCAGATGGTTCGCTGATGGAGATTACCAAAGTTTATCCATTGGATGC
genomic: AATATTTTTGAGTCCAGCCTACGGCGTGGAAAGTTTGACGAATCACGCGTgtatgacgtt ... tattttccagATTACCAGATGGTTCGCTGATGGAGATTACCAAAGTTTATCCATTGGATGC
EST: gi|9899327|gb|BE608295.1|BE608295
EST:     AATATTTTTGAGTCCAGCCTACGGCGTGGAAAGTTTGACGAATCACGCGT                         ATTACCAGATGGTTCGCTGATGGAGATTACCAAAGTTTATCCATTGGATGC
genomic: AATATTTTTGAGTCCAGCCTACGGCGTGGAAAGTTTGACGAATCACGCGTgtatgacgtt ... tattttccagATTACCAGATGGTTCGCTGATGGAGATTACCAAAGTTTATCCATTGGATGC
EST: gi|19053059|gb|BM731726.1|BM731726
EST:     AATATTTTTGAGTCCAGCCTACGGCGTGGAAAGTTTGACGAATCACGCGT                         ATTACCAGATGGTTCGCTGATGGAGATTACCAAAGTTTATCCATTGGATGC
genomic: AATATTTTTGAGTCCAGCCTACGGCGTGGAAAGTTTGACGAATCACGCGTgtatgacgtt ... tattttccagATTACCAGATGGTTCGCTGATGGAGATTACCAAAGTTTATCCATTGGATGC
EST: gi|298168738|gb|HO009668.1|HO009668
EST:     AATATTTTTGAGTCCAGCCTACGGCGTGGAAAGTTTGACGAATCACGCGT                         ATTACCAGATGGTTCGCTGATGGAGATTA
genomic: AATATTTTTGAGTCCAGCCTACGGCGTGGAAAGTTTGACGAATCACGCGTgtatgacgtt ... tattttccagATTACCAGATGGTTCGCTGATGGAGATTA
EST: gi|192306220|gb|FG995056.1|FG995056
EST:     AATATTTTTGAGTCCAGCCTACGGCGTGGAAAGTTTGACGAATCACGCGT                         ATTACCAGATGGTTCGCTGATGGAGATTACCTAAGTTTATCCATTGGATGC
genomic: AATATTTTTGAGTCCAGCCTACGGCGTGGAAAGTTTGACGAATCACGCGTgtatgacgtt ... tattttccagATTACCAGATGGTTCGCTGATGGAGATTACCAAAGTTTATCCATTGGATGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttgtttgttagactatgtgatgctattgctaataagaaactatattttccagATTACCAGATGGTTCGCTGATGGAGATTACCAAAGTTTATCCATTGGATGCAGTTTTTGACAATCTTGATGATGTGCCAGAAGAT
                             tgctaat  putative branch site (score: 2)
                                             tattttcc  putative PPT
                                taataagaaactatat  TA-rich tract