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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAAATCTGGTCAGTCTCCAAGGCTACTCTTTGTCAACGTACGGAAATCTTCTCTTTTATGACTACATGGAAAATGGCAGTCTATGGGATCTTCTGCATGgtaagttcaagccttggcttgaaagatgctgatgtactttgttgaaaacttttctgtacaatctactatgtacattcaaccttgcattgatttagcaata...

Basic information

species Glycine max
transcript GLYMA06G05900.1
intron # 26
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G05900.1 (Glycine max), 5'ss of exon 26
lower sequence: LOC_Os02g53720.1 (Oryza sativa), 5'ss of exon 4
AGAAATCTGGTCAGTCTCCAAGGCTACTCTTTGTCAACGTACGGAAATCTTCTCTTTTATGACTACATGGAAAATGGCAGTCTATGGGATCTTCTGCATGgtaagttcaagccttg-gcttgaaagatgctgatgtactttgttgaaaacttttctgtacaatctactatgtacattcaaccttgcattgat-ttagcaata
| ||||| ||||| || ||||| || || | ||| | || ||||||||||| || |||||| |||||||||||||||| |||||| || | |||||||||| | | | | || | | | ||| | | || || ||| || || ||| ||| || | || | |
CGGAATCTTGTCAGCCTTCAAGGGTATTCCCTATCACCTGCTGGGAATCTTCTCTTCTACGACTACTTGGAAAATGGCAGTCTCTGGGATGTTTTACATGgtaagtgaattttacatggcaaacaaatacataggaactgtaagcagaatagttg-gtatttagaacgattgttcttctggtttgtatagccgttgcctgt-

upper sequence: GLYMA06G05900.1 (Glycine max), 5'ss of exon 26
lower sequence: LOC_Os06g10230.1 (Oryza sativa), 5'ss of exon 25
AGAAATCTGGTCAGTCTCCAAGGCTACTCTTTGTCAACGTACGGAAATCTTCTCTTTTATGACTACATGGAAAATGGCAGTCTATGGGATCTTCTGCATGgtaagt--------tcaagccttggcttgaa--agatgctgatgtactttgttgaaaa-----------cttttctgtacaatctactatgt---acattcaaccttgcattgattta--gcaata----------------------------------------------------------
| ||||| |||||||| ||||| || || | || | |||||||||||||| || || |||||||||||||| || || |||||| || |||||||||||| ||| | | || || || | |||| | || | |||| | | | ||| | ||||| | |||| | || | ||||||
CGGAATCTAGTCAGTCTTCAAGGATATTCCCTATCTCCTGTTGGAAATCTTCTCTTCTACGATTACATGGAAAATGGAAGCCTCTGGGATGTTTTGCATGgtaagtgccgactgccaactcattgcacagtttgattgtcattgcaatttgcacagaagcaccaacatgccattctcaaaagcatgatatttgacacattgatatttgcttctgttgattgcaataccaaattgttacatgacatcttgttaccatgttaaaatcttttttttcattattctag

upper sequence: GLYMA06G05900.1 (Glycine max), 5'ss of exon 26
lower sequence: AT2G26330.1 (Arabidopsis thaliana), 5'ss of exon 25
AGAAATCTGGTCAGTCTCCAAGGCTACTCTTTGTCAACGTACGGAAATCTTCTCTTTTATGACTACATGGAAAATGGCAGTCTATGGGATCTTCTGCATGgtaagttcaa--gccttggcttgaaagatgctgatgtactttgt----tgaaaacttttctgtacaatctactatgtacattcaaccttgcattgatttagcaata
|||||||| || || || |||| || || | || | || | |||||| || |||||||| |||||||||| || || ||||||||||| |||||||||| | ||| | |||| | | | | ||| | | ||||| ||| | | | |
AGAAATCTTGTGAGCCTACAAGCTTATTCCCTCTCTCACTTGGGGAGTCTTCTGTTCTATGACTATTTGGAAAATGGTAGCCTCTGGGATCTTCTTCATGgtaagtctcatcgccaaacatagaaaattatttgaatcttctgtgacataacaacttgcttgtgtgttttgtaaag------------------------------

upper sequence: GLYMA06G05900.1 (Glycine max), 5'ss of exon 26
lower sequence: Vv04s0008g01970.t01 (Vitis vinifera), 5'ss of exon 25
AGAAATCTGGTCAGTCTCCAAGGCTACTCTTTGTCAACGTACGGAAATCTTCTCTTTTATGACTACATGGAAAATGGCAGTCTATGGGATCTTCTGCATGgtaagttcaagccttggcttgaaagatgctgatgtactttgttgaaaacttttctgtacaa---tctactatgtacattcaaccttgcattg-atttagcaata---
|| ||||||||| |||| ||||| || || |||| | | || || || ||||| |||||||||||||||||||||||||| |||||||| || ||||||||||| || | || | |||| || | | || || || || |||| | || | || | || || || || | || | |
AGGAATCTGGTCTGTCTACAAGGATATTCCCTGTCCCCTTCTGGGAACCTACTCTTCTATGACTACATGGAAAATGGCAGTCTCTGGGATCTACTTCATGgtaagtttaaacttt--cctgaacaatatgg---tgctctgc--aagtctgatctgaaaaaatatttatcacttaaatgggtgctaaatgtgtgtcaagaagtgtga

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|207785662|gb|GD755731.1|GD755731
EST:     TCTCTTTTATGACTACATGGAAAATGGCAGTCTATGGGATCTTCTGCATG                         GACCTACCAAGAAGAAAAAGCTTGATTGGGATCTTCGTCTAAAAATAGCAC
genomic: TCTCTTTTATGACTACATGGAAAATGGCAGTCTATGGGATCTTCTGCATGgtaagttcaa ... ttttttgcagGACCTACCAAGAAGAAAAAGCTTGATTGGGATCTTCGTCTAAAAATAGCAC
EST: gi|207777724|gb|GD749687.1|GD749687
EST:     TCTCTTTTATGACTACATGGAAAATGGCAGTCTATGGGATCTTCTGCATG                         GACCTACCAAGAAGAAAAAGCTTGATTGGGATCTTCGTCTAAAAATAGCAC
genomic: TCTCTTTTATGACTACATGGAAAATGGCAGTCTATGGGATCTTCTGCATGgtaagttcaa ... ttttttgcagGACCTACCAAGAAGAAAAAGCTTGATTGGGATCTTCGTCTAAAAATAGCAC
EST: gi|193490625|gb|FK456408.1|FK456408
EST:     TCTCTTTTATGACTACATGGAAAATGGCAGTCTATGGGATCTTCTGCATG                         GACCTACCAAGAAGAAAAAGCTTGATTGGGATCTTCGTCTAAAAA
genomic: TCTCTTTTATGACTACATGGAAAATGGCAGTCTATGGGATCTTCTGCATGgtaagttcaa ... ttttttgcagGACCTACCAAGAAGAAAAAGCTTGATTGGGATCTTCGTCTAAAAA
EST: gi|193337606|gb|FK304624.1|FK304624
EST:     TCTTTTATTGACTACATGGAAAATAGGCAGTCTATGGGATCTTCTGCATG                         GACCTACCAAGAAGAAAAAGACTTGATTGGGATCTTCGTCTAAAAATAGCA
genomic: TCTTTTA-TGACTACATGGAAAAT-GGCAGTCTATGGGATCTTCTGCATGgtaagttcaa ... ttttttgcagGACCTACCAAGAAGAAAAAG-CTTGATTGGGATCTTCGTCTAAAAATAGCA
EST: gi|193696097|gb|FK637565.1|FK637565
EST:     TCTCTTTTATGACTACATGGAAAATGGCAGTCTATGGGATCTTCTGCATG                         GACCTACCAAGAAGAAAAAGCTTGATTGGGATCTTCGTCTAAAAA
genomic: TCTCTTTTATGACTACATGGAAAATGGCAGTCTATGGGATCTTCTGCATGgtaagttcaa ... ttttttgcagGACCTACCAAGAAGAAAAAGCTTGATTGGGATCTTCGTCTAAAAA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAAATCTGGTCAGTCTCCAAGGCTACTCTTTGTCAACGTACGGAAATCTTCTCTTTTATGACTACATGGAAAATGGCAGTCTATGGGATCTTCTGCATGgtaagttcaagccttggcttgaaagatgctgatgtactttgttgaaaacttttctgtacaatctactatgtacattcaaccttgcattgatttagcaata

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA