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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagtaacttttagcagttgcaaccagaaagactgacagtttttgctatcatcttttgcatgatgtgtatatatatatatatgttgaatgttgttctagacatggtttcaaatctaattatatgaaccatctttagGATCAAGGTTTGGATATGATCGCAGAAGGATTGGATACTTTGAAAAACATGGCACATGATATGAATGAG

Basic information

species Glycine max
transcript GLYMA03G33680.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G33680.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os05g48020.1 (Oryza sativa), 3'ss of exon 4
gcaagtaacttttagcagttgcaaccagaaagactgacagtttttgctatcatcttttgcatgatgtgtatatatatatatatgttgaatgt----tgttctagacatggtttcaaatctaattatatgaaccatctttagGATCAAGGTTTGGATATGATCGCAGAAGGATTGGATACTTTGAAAAACATGGCACATGATATGAATGAG
                                |   |    ||   | | ||   ||| | |  | |  || | |   ||  || || | ||    | |  ||   | |||  |   | ||   |  ||||   |||  ||||| ||||||||||||| ||||  |||||  |||| ||| ||||||||||||||  |||||||||||||
-----------------------------gtaatatattaattccccgaacacgcttttcttccttttcatttttggctac-tgctggaagtgggatttcttatgtaaggtgacctgtgtatggaattgaaat-tctgcagGATGAAGGTTTGGATATTATCGGTGAAGGGCTGGAAACTCTGAAAAACATGGCATCTGATATGAATGAG

upper sequence: GLYMA03G33680.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G057251_T01 (Zea mays), 3'ss of exon 4
gcaagtaacttttagcagttgcaaccagaaagactgacagtttttgctatcatcttttgcatgatgtgtatatatatatatatgttgaatgttgttctag-acatggtttcaaatctaatta-tatgaaccatctttagGATCAAGGTTTGGATATGATCGCAGAAGGATTGGATACTTTGAAAAACATGGCACATGATATGAATGAG
                          | |   |||||     ||| ||    ||| || |||  | | |   ||  |  ||   ||   | |   | |   | ||||| | |  | |  ||   |  ||   | |  ||||| ||||||||||  | || |  |||||| |||| ||||||||||||||||||  |||||||||||||
------------------------gtaaattcactgagccactttcctcctttctgtttcatattctcttgctac-tggatgcatttcctctcaatttgtcatatggtgtaacttgtctttggcaataaaattgtgcagGATGAAGGTTTGGACGTTATTGGTGAAGGACTGGAAACTTTGAAAAACATGGCATCTGATATGAATGAG

upper sequence: GLYMA03G33680.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv08s0040g02130.t01 (Vitis vinifera), 3'ss of exon 4
gcaagtaacttttagcagttgcaaccagaaagactgacagtttttgctatcatcttttgcatgatgtgtatatatatatatatgttgaatgttgttctagacatggtttcaaatctaattatatgaaccatctttagGATCAAGGTTTGGATATGATCGCAGAAGGATTGGATACTTTGAAAAACATGGCACATGATATGAATGAG
| ||||   | |     ||    ||   |    | || |   |   ||||  ||| ||    ||  || || | | |   ||||||   |  |||   | |      ||  |||||   | | | |    | |  |||| |||||||||||| |||| |||||||| ||||| || |||||||||||||| |||||||||||||||
gtaagtctatgtggattgt-attacttaattatcagaaaagatgcactattttctattatcagagctgcatct-tttggctatgtt---tcctgtatcaca------ttataatct---tctttaacatttgtgcagGACCAAGGTTTGGATGTGATAGCAGAAGGTTTGGACACATTGAAAAACATGGCCCATGATATGAATGAG

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|9987448|gb|BE661556.1|BE661556
EST:     AAGAATCAAGTGGATTCANGAAAGAGT-CGAAATGCGTAAAATGAAACAG                         GATCAAAGGTTTGGATATGATCG
genomic: AAGAATCAAGTGGATTCAGGAAAGAGTACGAAATGCGTAAAATGAAACAGgcaagtaact ... ccatctttagGATCAA-GGTTTGGATATGATCG
EST: gi|7588839|gb|AW704626.1|AW704626
EST:     AAGAATCAAGTGGATTCAGGANAGAGTACGAAATGCGTAAAATGAAACAG                         GATCAAGGTTTGGATATGATCGCAGAAGGATTGGAT
genomic: AAGAATCAAGTGGATTCAGGAAAGAGTACGAAATGCGTAAAATGAAACAGgcaagtaact ... ccatctttagGATCAAGGTTTGGATATGATCGCAGAAGGATTGGAT
EST: gi|19053265|gb|BM731932.1|BM731932
EST:     AAGAATCAAGTGGATTCAGGAAAGAGTACGAAATGCGTAAAATGAAACAG                         GATCAAGGTTTGGATATGATCGCAGAAGGATTGGATACTTTGAAAAACATG
genomic: AAGAATCAAGTGGATTCAGGAAAGAGTACGAAATGCGTAAAATGAAACAGgcaagtaact ... ccatctttagGATCAAGGTTTGGATATGATCGCAGAAGGATTGGATACTTTGAAAAACATG
EST: gi|151393190|gb|EV263065.1|EV263065
EST:     AAGAATCAAGTGGATTCAGGAAAGAGTACGAAATGCGTAAAATGAAACAG                         GATCAAGGTTTGGATATGATCGCA
genomic: AAGAATCAAGTGGATTCAGGAAAGAGTACGAAATGCGTAAAATGAAACAGgcaagtaact ... ccatctttagGATCAAGGTTTGGATATGATCGCA
EST: gi|31471750|gb|CD413778.1|CD413778
EST:     AAGAATCAAGTGGATTCAGGAAAGAGTACGAAATGCGTAAAATGAAACAG                         GATCAAGGTTTGGATATGATCGCAGAAGGATTGGATACTTTGAAAAACATG
genomic: AAGAATCAAGTGGATTCAGGAAAGAGTACGAAATGCGTAAAATGAAACAGgcaagtaact ... ccatctttagGATCAAGGTTTGGATATGATCGCAGAAGGATTGGATACTTTGAAAAACATG
EST: gi|192294446|gb|FG987375.1|FG987375
EST:     AAGAATCAAGTGGATTCAGGAAGGAGTACGAAATGCGTAAAATGAAACAG                         GATCAAGGTTTGGATATGATCGCAGAAGGATTGGATACTTTGAAAAACATG
genomic: AAGAATCAAGTGGATTCAGGAAAGAGTACGAAATGCGTAAAATGAAACAGgcaagtaact ... ccatctttagGATCAAGGTTTGGATATGATCGCAGAAGGATTGGATACTTTGAAAAACATG
EST: gi|208030044|gb|GD831526.1|GD831526
EST:     AAGAATCAAGTGGATTCAGGAAAGAGTACGAAATGCGTAAAATGAAACAG                         GATCAAGGTTTGGATA
genomic: AAGAATCAAGTGGATTCAGGAAAGAGTACGAAATGCGTAAAATGAAACAGgcaagtaact ... ccatctttagGATCAAGGTTTGGATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttgaatgttgttctagacatggtttcaaatctaattatatgaaccatctttagGATCAAGGTTTGGATATGATCGCAGAAGGATTGGATACTTTGAAAAACATGGCACATGATATGAATGAG
                              atctaat  putative branch site (score: 3)
                                             ccatcttt  putative PPT
                        tttcaaatctaattat  TA-rich tract