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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttctcttcctttattctttttcctgcttcttggaatgttatgttgttgtgagatagtacattcttctatgataataatgacacacttttgttttgagtgcagATGTGGATTGCAAAGGCAGAATATGACGAGTCTGGTCCATCAATTGTGCACAGAAAGTGCTTCTAA

Basic information

species Glycine max
transcript GLYMA18G52780.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G52780.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv13s0019g01240.t01 (Vitis vinifera), 3'ss of exon 3
gtttgttctcttcctttattctttttcctgcttcttggaatgttatgttgttgtgagatag-tacattcttctatgataataatgacacacttttgttttgagtgcagATGTGGATTGCAAAGGCAGAATATGACGAGTCTGGTCCATCAATTGTGCACAGAAAGTGCTTCTAA----------------------------------
||||| |   || ||  |    |||   ||       ||||| | | |    ||||   |  |    |  | | ||||   | ||   || |||    |||||||||||||||||| |||||||| || ||||| |||||||| |||||||| ||||| || || || ||||||                                  
gtttgcttcttttctgcaaagatttatatgt------gaatgat-tctaaccgtgaatcatctttgatagtttctgattggagtg---catttt----ttgagtgcagATGTGGATAGCAAAGGCGGAGTATGATGAGTCTGGGCCATCAATCGTGCATAGGAAATGTTTCTAATTGTTCAAGAATAGGATCATGGAAGAAAGGAAGC

upper sequence: GLYMA18G52780.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S337_21V6.2 (Physcomitrella patens), 3'ss of exon 5
-----------------------------gtttgttctcttcctttattcttt----ttcctgcttcttggaatgttatgttgttgtgagatagtacattcttctatgataataatgacacacttttgttttgagtgcagATGTGGATTGCAAAGGCAGAATATGACGAGTCTGGTCCATCAATTGTGCACAGAAAGTGCTTCTAA----------------------------------
                              |||  | | ||  |||||   ||    |   || |||||  |||| |    | |   |||   ||| ||  ||||   ||  ||||  |      ||||| || ||||||||||||||||| ||| | || || || ||||| |||||||||||||||||||| ||||| |||||                                   
gtaatgtatttgactcgtgtctgagttgcatttcgtgtttttttttatgtcttcatgtctttgtttcttcaaatgctcgcgtttgtcgaggctgta-atctttctggaatt-taatc-cgtttacttgttgtg-gtgcagATGTGGATTGCGAAGTCGGAGTACGATGAGTCAGGTCCATCAATTGTGCACAGGAAGTGTTTCTAGAGCAGTGCGACACATCTTTTGCTTTTTTCAGCAC

upper sequence: GLYMA18G52780.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S372_38V6.1 (Physcomitrella patens), 3'ss of exon 4
--------------------------------gtttgttctcttcctttattctttttcctgcttc---ttggaatgttatgttgttgtgagatagtacattcttctatgataataatgacacacttttgttttgagtgcagATGTGGATTGCAAAGGCAGAATATGACGAGTCTGGTCCATCAATTGTGCACAGAAAGTGCTTCTAA----------------------------------
                                |   ||  |     || |   | ||| | | |     | ||||| | |   ||||  ||||   |   |  |||  || |   |   | |   || | | |   |||||||||||||| || ||  |||| || |||||||| ||||||||||||||||| || ||||| |||||                                   
gtaaactgagtttgcatgatattttctacgttggacgtggtaaatattgaacttcttttcagttagcagtcggaatttgagtatgtttcgagaggttggttaattcggtgtttgca--catattgttctttctgtggtgcagATGTGGATCGCGAAATCAGAGTACGACGAGTCAGGTCCATCAATTGTGCATAGGAAGTGTTTCTAGGTAAGATGTATGTACCGCTTGACTTTTTCATGAC

upper sequence: GLYMA18G52780.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S372_48V6.1 (Physcomitrella patens), 3'ss of exon 3
--------------------------------gtttgttctcttcctttattctttttcctgcttc---ttggaatgttatgttgttgtgagatagtacattcttctatgataataatgacacacttttgttttgagtgcagATGTGGATTGCAAAGGCAGAATATGACGAGTCTGGTCCATCAATTGTGCACAGAAAGTGCTTCTAA
                                |   ||  |     || |   | ||| | | |     | ||||| | |   ||||  ||||   |   |  |||  || |   |   | |   || | | |   |||||||||||||| || ||  |||| || |||||||| ||||||||||||||||| || ||||| ||||| 
gtaaactgagtttgcatgatattttctacgttggacgtggtaaatattgaacttcttttcagttagcagtcggaatttgagtatgtttcgagaggttggttaattcggtgtttgca--catattgttctttctgtggtgcagATGTGGATCGCGAAATCAGAGTACGACGAGTCAGGTCCATCAATTGTGCATAGGAAGTGTTTCTAG

upper sequence: GLYMA18G52780.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ35077 (Selaginella moellendorffii), 3'ss of exon 3
gtttgttctcttcctttattctttttcctgcttcttggaatgttatgttgttgtgagatagtacattcttctatgataataatgacacacttttgttttgagtgcagATGTGGATTGCAAAGGCAGAATATGACGAGTCTGGTCCATCAATTGTGCACAGAAAGTGCTTCTAA
                                        |   |     || |    | |  | || |||| |   |    ||     |||||  |||    ||||||||||||||||||| | || || || ||||| |||||||| ||||||||||||||||||||||| 
---------------------------------------gtaccacaacattctt---ttgctcgtttttct-tatcagccttgtttttctttttcttttttcgcagATGTGGATTGCAAAGTCCGAGTACGATGAGTCGGGTCCATCGATTGTGCACAGAAAGTGCTTCTAG

upper sequence: GLYMA18G52780.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 3
gtttgttctcttcctttattctttttcctgcttcttggaatgttatgttgttgtgagatagtacattcttctatgataataatgacacacttttgttttgagtgcagATGTGGATTGCAAAGGCAGAATATGACGAGTCTGGTCCATCAATTGTGCACAGAAAGTGCTTCTAA
                                        |   |     || |    | |  | || |||| |   |    ||     |||||   ||    ||||||||||||||||||| | || || || ||||| |||||||| ||||||||||||||||||||||| 
---------------------------------------gtaccacaacattctt---ttgctcgtttttct-tatcagccttgtttttctttttcgtttctcgcagATGTGGATTGCAAAGTCCGAGTACGATGAGTCGGGTCCATCGATTGTGCACAGAAAGTGCTTCTAG

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|105633490|gb|DW246853.1|DW246853
EST:     GTCTGGATCGGTGGGTTCTATCTTGGCATCTCTTTAACACCTTCCAGCAG                         ATGTGGATTGCAAAGGCAGAAATATGACGAGTC
genomic: GTCTGGATCGGTGG-TTCTATCTTGGCATCTCTT-AGCACCTTCCAGCAGgtttgttctc ... ttgagtgcagATGTGGATTGCAAAGGCAGAA-TATGACGAGTC
EST: gi|17023789|gb|BM094823.1|BM094823
EST:     GTGTCTGGATCGGTGGTTCTATCTTGGCATCTCTTAGCACCTTCCAGCAG                         ATGTGGATTGCAAAGGCAGAATATGACGAGTCTGGTCCATCAATTGTGCAC
genomic: GTGTCTGGATCGGTGGTTCTATCTTGGCATCTCTTAGCACCTTCCAGCAGgtttgttctc ... ttgagtgcagATGTGGATTGCAAAGGCAGAATATGACGAGTCTGGTCCATCAATTGTGCAC
EST: gi|21601462|gb|BQ611793.1|BQ611793
EST:     GTGTCTGGATCGGTGGTTCTATCTTGGCATCTCTTAGCACCTTCCAGCAG                         ATGTGGATTGCAAAGGCAGAATATGACGAGTCTGGTCCATCAATTGTGCAC
genomic: GTGTCTGGATCGGTGGTTCTATCTTGGCATCTCTTAGCACCTTCCAGCAGgtttgttctc ... ttgagtgcagATGTGGATTGCAAAGGCAGAATATGACGAGTCTGGTCCATCAATTGTGCAC
EST: gi|10843337|gb|BF066640.1|BF066640
EST:     GTGTCTGGATCGGTGGTTCTATCTTGGCATCTCTTAGCACCTTCCAGCAG                         ATGTGGATTGCANAGGCAGAATATGACGAGTCTGGTCCATCAATTGTGCAC
genomic: GTGTCTGGATCGGTGGTTCTATCTTGGCATCTCTTAGCACCTTCCAGCAGgtttgttctc ... ttgagtgcagATGTGGATTGCAAAGGCAGAATATGACGAGTCTGGTCCATCAATTGTGCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgagatagtacattcttctatgataataatgacacacttttgttttgagtgcagATGTGGATTGCAAAGGCAGAATATGACGAGTCTGGTCCATCAATTGTGCACAGAAAGTGCTTCTAA
                                     cttttgtttt  CT-rich tract
                ttctatgataataat  TA-rich tract