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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgaaaatatattttttaaattcttccttcaactaaggtatcactgctagttactgaacttataaatgatgatgcagGTGCTAAATCAGGATGAGACACCTTTGCTGTACAGTCTTGTATTTGGGGAGGGTGTTGTGAATGATGCTACATCAGTGGTGCTTTTCAATGCAATCCAAA

Basic information

species Glycine max
transcript GLYMA20G37370.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G37370.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os07g47100.2 (Oryza sativa), 3'ss of exon 5
---gtttgaaaatatattttttaaattcttccttcaactaaggtatcac-tgctagt-tactgaacttataaatgatgatgcagGTGCTAAATCAGGATGAGACACCTTTGCTGTACAGTCTTGTATTTGGGGAGGGTGTTGTGAATGATGCTACATCAGTGGTGCTTTTCAATGCAATCCAAA
     ||||| | || |||   | |           ||   | |   || ||||| | || ||| ||||   |     |  ||||| || ||||||||||||||||| ||  |||||||||| ||||| || || ||||||||||| |||||||||||| | ||||||||||| ||| | || |
gttagttgaacaaat-tttgccatacctcgagagagacctggattcaacgtgctaatgtaatgatctta---accccaaaacagGTCCTCAATCAGGATGAGACACCCTTTTTGTACAGTCTGGTATTCGGTGAAGGTGTTGTGAACGATGCTACATCAATTGTGCTTTTCAACGCACTACAGA

upper sequence: GLYMA20G37370.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G063492_T01 (Zea mays), 3'ss of exon 6
gtttgaaaatatattttttaa-attcttccttcaactaaggtatcactgctagtta-ctgaacttataaatgatga--tgcagGTGCTAAATCAGGATGAGACACCTTTGCTGTACAGTCTTGTATTTGGGGAGGGTGTTGTGAATGATGCTACATCAGTGGTGCTTTTCAATGCAATCCAAA
|||||    |  |   |||   ||| ||   | |   ||  |   |  |  ||  |  | || |   || | || |  |||||||||| || |||||||| |||||  | || || ||||| || ||||| || |||||||| |||||||| ||||| || ||||| |||||||||||  |||
gtttgttgttgaacaatttgccatttttatcttataaaaattgagataggaagccaatttaattggaaattcattacttgcagGTGCTTAACCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTCAATGCAATTGAAA

upper sequence: GLYMA20G37370.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G701776_T01 (Zea mays), 3'ss of exon 2
gtttgaaaatatattttttaaattcttccttcaactaaggtatcactgctagttactgaacttataaatg-atga--tgcagGTGCTAAATCAGGATGAGACACCTTTGCTGTACAGTCTTGTATTTGGGGAGGGTGTTGTGAATGATGCTACATCAGTGGTGCTTTTCAATGCAATCCAAA-
|||||    |  |   | |    | ||   | |   ||  |   |  |  ||  | |  | ||  ||||  || |  |||||||| |||  |||||||| |||||  | || || ||||| || ||||| || |||||||| |||||||| ||||| || ||||| |||||||||||  ||| 
gtttgttgttgaacaatctgccattttatcttataaaaattgagataggaagccaatttaattggaaattcattacttgcagGTGTTAA-CCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTCAATGCAATTGAAAA

upper sequence: GLYMA20G37370.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv14s0030g00710.t01 (Vitis vinifera), 3'ss of exon 5
gtttgaaaatatatttt-ttaaattcttccttcaactaaggtatcactgctagtta--ctgaacttataaat---gatgatgcagGTGCTAAATCAGGATGAGACACCTTTGCTGTACAGTCTTGTATTTGGGGAGGGTGTTGTGAATGATGCTACATCAGTGGTGCTTTTCAATGCAATCCAAA
|| ||      ||     ||| |     |   |||| | |||| || |  | || |  || ||| | |   |   ||||||||||||||| || ||||||||||| ||||| || || || || || ||||||||||| ||||| ||||||||  ||||||| || ||||||||||||||||| |
gtatggtgcattacaaagttatagcagccagacaacaatggtaccaatagttgtgaaactaaaccttttccttctgatgatgcagGTGCTTAACCAGGATGAGACGCCTTTACTTTATAGCCTGGTCTTTGGGGAGGGGGTTGTAAATGATGCAGCATCAGTTGTTCTTTTCAATGCAATCCAGA

upper sequence: GLYMA20G37370.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S113_117V6.1 (Physcomitrella patens), 3'ss of exon 4
-----------------------gtttgaaaatatattttttaaattcttccttcaactaaggtatcactgctagttactgaacttataaa---tgatgatgcagGTGCTAAATCAGGATGAGACACCTTTGCTGTACAGTCTTGTATTTGGGGAGGGTGTTGTGAATGATGCTACATCAGTGGTGCTTTTCAATGCAATCCAAA
                       |||     | ||  ||     || |||| || |  | |  | |   ||  | ||  | |  || |      ||    |||||||||| |||||||||||||| ||| |||| |||||| | || ||||| || || || || ||||||||||| || ||||| || ||    ||  | ||| 
attcatggtacctgaattggatggttcagggaaatgatt---ggatacttctttaa--tgatttttttttgtcaattgttcactttgtggtgcttgtctttgcagGTGCTCAATCAGGATGAGACCCCTCTGCTTTACAGTTTGGTGTTTGGAGAAGGAGTAGTCAATGATGCTACTTCTGTGGTTCTATTTCGGGCTGTTCAAT

upper sequence: GLYMA20G37370.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S207_23V6.2 (Physcomitrella patens), 3'ss of exon 6
--------------------------------------------------------------------------------------------------------------------gtttgaaaatatattttttaaattcttccttcaactaaggtatcactgctagttactgaacttataaatgatgatgcagGTGCTAAATCAGGATGAGACACCTTTGCTGTACAGTCTTGTATTTGGGGAGGGTGTTGTGAATGATGCTACATCAGTGGTGCTTTTCAATGCAATCCAAA
                                                                                                                        |||  |  ||| ||    |  |      || |  | | ||       ||   |||     |   |  | |||||||| || |||||||||||  ||||| | || ||||||||||| ||||| || || ||||| ||||||||||| || || ||  | |||   ||  | || |
gtgggctgcttttttcgtcactgtcattgaagcactgctgtcaagctcatgtagaaagtgtagagaagatttcaagctttcgtagattggcagagtgtctttgctccatgattttatagagaagctgcattcttctgttcttgaaagtaattgggttttcctctggcgtggttgacgacttgttttttaatgcagGTTCTTAATCAGGATGATTCACCTCTACTATACAGTCTTGTGTTTGGAGAAGGAGTTGTCAATGATGCTACCTCTGTAGTCTTATTCCGGGCTGTACAGA

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|5688111|gb|AI941126.1|AI941126
EST:     CATTTGGTGCAATATTTGCTGCAACGGATTCTGTTTGCACATTGCAG                         GTGCTTAATCAGGATGAGACACCTTTGCTGTACAGTCTTGTATTTGGGGAG
genomic: CAATTGGTGCAATATTTGCTGCAACGGATTCTGTTTGCACATTGCAGgtttgaaaat ... gatgatgcagGTGCTAAATCAGGATGAGACACCTTTGCTGTACAGTCTTGTATTTGGGGAG
EST: gi|9440328|gb|BE440835.1|BE440835
EST:     CAATTGGTGCAATATTTGCTGCAACGGATTCTGTTTGCACATTGCAG                         GTGCTAAATCAGGATGAGACACCTTTGCTGTACAGTCTTGTATTTGGGGAG
genomic: CAATTGGTGCAATATTTGCTGCAACGGATTCTGTTTGCACATTGCAGgtttgaaaat ... gatgatgcagGTGCTAAATCAGGATGAGACACCTTTGCTGTACAGTCTTGTATTTGGGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttccttcaactaaggtatcactgctagttactgaacttataaatgatgatgcagGTGCTAAATCAGGATGAGACACCTTTGCTGTACAGTCTTGTATTTGGGGAGGGTGTTGTGAATGATGCTACATCAGTGGTGCTTTTCAATGCAATCCAAA
                                  aacttataaatgat  TA-rich tract