Sequence
atgc intronic sequence ATGC exonic sequenceGTTATAAATTTGTACCTGGAATTGCTTAAGGAGAGGGAGCAAAGAGAACCACTGAAATTTCTGAAATGTCATTTTTTCAATACCTTTTTCTACAAAAAGgtagaataccccttcacataattatttagtgttgactttgaaaaaccattccaccctcagatgattgataaccattgttaaggagaggggccattttcct...
Basic information
species | Glycine max |
transcript | GLYMA15G15890.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G15890.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os03g29630.1 (Oryza sativa), 5'ss of exon 4
GTTATAAATTTGTACCTGGAATTGCTTAAGGAGAGGGAGCAAAGAGAACCACTGAAATTTCTGAAATGTCATTTTTTCAATACCTTTTTCTACAAAAAGgtagaataccccttcacataattatttagtgttgactttgaaaaaccattccaccctcagatgattgataaccattgttaaggagaggggcc-attttcct---
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GTCATTAATTTGTACCTTGAATTGTTAAAGGAGAGGGCGCAAAGAGAACCAAAAAGATTTTTGAAATGCCACTTCTTCAATACATTCTTTTATAAGAAGgttagataatt-tgcatatttttctttccggtgctgtatgatggaatgttcttttc---aatatttctgtagttctgttacacacaccattttatgatcttcag
upper sequence: GLYMA15G15890.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os01g25370.3 (Oryza sativa), 5'ss of exon 4
GTTATAAATTTGTACCTGGAATTGCTTAAGGAGAGGGAGCAAAGAGAACCACTGAAATTTCTGAAATGTCATTTTTTCAATACCTTTTTCTACAAAAAGgtagaataccccttcacataattatttagtgttgactttgaaaaaccattccaccctcagatgattgataaccattgttaaggagaggggccattttcct----
|| ||||||||||| || || |||| || |||||||| | |||||||| || ||| ||||||| || || |||||||||||||||||||||||||| | | ||| |||||| | ||| | || || || | ||| || | | | ||||| | || || |
GTCATAAATTTGTATCTTGAGCTGCTGAAAGAGAGGGAACTGAGAGAACCTAACAAGTTTTTGAAATGCCACTTCTTCAATACCTTTTTCTACAAAAAGgtcagcttctgtttc-tataattcagtttccctgatacttcct--ccgtttcatatt-agaagactttttagcattgcccacattcatatatatgttaatgaat
upper sequence: GLYMA15G15890.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G088653_T01 (Zea mays), 5'ss of exon 4
GTTATAAATTTGTACCTGGAATTGCTTAAGGAGAGGGAGCAAAGAGAACCACTGAAATTTCTGAAATGTCATTTTTTCAATACCTTTTTCTACAAAAAGg--tagaataccccttcacataattatt--tagtgttgactttgaaaaaccattccaccctcagatgattgataaccattgttaaggagaggggccattttcct
| ||| |||||||| || || | ||||| || ||||| | ||||||||| | || | ||||||||||| ||||| |||||||||||||| |||| | || ||| || | || | | || | ||| || | | | | | |||| | | | | | ||| |
GCTATCAATTTGTATCTTGATCTTCTTAAAGAAAGGGAACTAAGAGAACCTTGCAGGTTCTTAAAATGTCATTTCTTCAACACCTTTTTCTACAAGAAGgtttgtgttagaacttgttttaccttttggtgggacaattcttttttatttatttttccttgattctaaaaactagcattctcatccaatgtg--catcata--
upper sequence: GLYMA15G15890.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G012601_T02 (Zea mays), 5'ss of exon 4
GTTATAAATTTGTACCTGGAATTGCTTAAGGAGAGGGAGCAAAGAGAACCACTGAAATTTCTGAAATGTCATTTTTTCAATACCTTTTTCTACAAAAAGgta-gaataccccttcacataattatttagtg--ttgact-ttgaaaaaccattccaccct-cagatgattgataaccattgttaaggagaggggccattttcct
||||| |||||||| || || ||||||| |||||||| | ||||||||| | || || | ||||| ||||| ||||| |||||||||||||| ||||| | | || | | ||| ||| | | || ||| || | | | | | |||||| | | | |
GTTATCAATTTGTATCTTGATCTGCTTAAAGAGAGGGAACTAAGAGAACCTCGCAAGTTCTTAAAATGCCATTTCTTCAACACCTTTTTCTACAAGAAGgtttgtgttagaatttgttttaccttttcgtgggccaattcttttttgtttatttttccttgcttctaagaaactaccattctcatcaaatgtacatgaa-----
upper sequence: GLYMA15G15890.1 (Glycine max), 5'ss of exon 5
lower sequence: AT3G06910.1 (Arabidopsis thaliana), 5'ss of exon 4
GTTATAAATTTGTACCTGGAATTGCTTAAGGAGAGGGAGCAAAGAGAACCACTGAAATTTCTGAAATGTCATTTTTTCAATACCTTTTTCTACAAAAAGgtagaataccccttcacataattatttagtgttgactttgaaaaaccattccaccctcagatgattgataaccattgttaaggagaggggccattttcct
|| || ||| | || ||| |||||| || || ||||| ||||||||| ||| ||||| |||||||||||||||||||| ||||||| || ||||| |||||| || || || | | || | ||| | | || | || ||| | || | | | | || |
GTCATTAATCTTTATATGGTATTGCTGAAAGAAAGGGAAGCTAGAGAACCAAAGAAGTTTCTTAAATGTCATTTTTTCAATACATTTTTCTTCACTAAGgtt--atacccatttctatggctaatgaaatttaaattttagcccctatatatgctcatgaatattaacaagaagacattaccttaaatcacacctcag-
upper sequence: GLYMA15G15890.1 (Glycine max), 5'ss of exon 5
lower sequence: AT4G15880.1 (Arabidopsis thaliana), 5'ss of exon 4
GTTATAAATTTGTACCTGGAATTGCTTAAGGAGAGGGAGCAAAGAGAACCACTGAAATTTCTGAAATGTCATTTTTTCAATACCTTTTTCTACAAAAAGgtagaataccccttcacataattatttagtgttgactttgaaaaaccattccaccctcagatgattgataaccattgttaaggagaggggccattttcct-----------
||||| ||| | ||||| ||| | || || || || || ||||| || || | | |||| ||||| | |||||||||||||||||||||||||| | | | | | | ||| ||| || || ||| | ||| || | || | || | || || | || | |
GTTATCAATGTCTACCTTGAACTACTCAAAGAAAGAGAAACTAGAGAGCCCAAAAAGTATTTGAAGTGTCACTACTTCAATACCTTTTTCTACAAAAAGgtttgttttctttctgctca----------gatgatttttaacaaaaatttgatcctttt-tgcctcatgtcagttcgactgagtagctgctacttgcttccataaaaatg
upper sequence: GLYMA15G15890.1 (Glycine max), 5'ss of exon 5
lower sequence: EFJ28303 (Selaginella moellendorffii), 5'ss of exon 3
GTTATAAATTTGTACCTGGAATTGCTTAAGGAGAGGGAGCAAAGAGAACCACTGAAATTTCTGAAATGTCATTTTTTCAATACCTTTTTCTACAAAAAGgtagaataccccttcacataattatttagtgttgactttgaaaaaccattccaccctcagatgattgataaccattgttaaggagaggggccattttcct
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GTGATCAATTTGTACATGGAATTGCTGAAGGAGAGGGAGATTCGAGAGCCCAAAAAATTTTTGCGGTGTCATTTCTTCAATACTTTCTTCTACAACAAAgtaagc--ctgtcttggaaaagaaagaaacttacatttggtttactcgttaag-----------------------------------------------
upper sequence: GLYMA15G15890.1 (Glycine max), 5'ss of exon 5
lower sequence: EFJ20326 (Selaginella moellendorffii), 5'ss of exon 3
GTTATAAATTTGTACCTGGAATTGCTTAAGGAGAGGGAGCAAAGAGAACCACTGAAATTTCTGAAATGTCATTTTTTCAATACCTTTTTCTACAAAAAGgtagaataccccttcacataattatttagtgttgactttgaaaaaccattccaccctcagatgattgataaccattgttaaggagaggggccattttcct
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GTGATCAATTTGTACATGGAATTGCTGAAGGAGAGGGAGATTCGAGAGCCCAAAAAATTTTTGCGGTGTCATTTCTTCAATACTTTCTTCTACAACAAAgtaagccagtctt--ggaaaagaaagaaacttacatttggtttactcgttaag-----------------------------------------------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|16996250|gb|BM085622.1|BM085622EST: CACTGAAATTTCTGAAATGTCATTTTTTCAATACCTTTTTCTACAAAAAG TTAATAAGTGGTCCGAAAGGTTATGATTTCAAATCTGTCAGAAGATGGACA
genomic: CACTGAAATTTCTGAAATGTCATTTTTTCAATACCTTTTTCTACAAAAAGgtagaatacc ... gtttttgcagTTAATAAGTGGTCCGAAAGGTTATGATTTCAAATCTGTCAGAAGATGGACA
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 |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTATAAATTTGTACCTGGAATTGCTTAAGGAGAGGGAGCAAAGAGAACCACTGAAATTTCTGAAATGTCATTTTTTCAATACCTTTTTCTACAAAAAGgtagaataccccttcacataattatttagtgttgactttgaaaaaccattccaccctcagatgattgataaccattgttaaggagaggggccattttcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccccttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caccctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggagagg