Sequence
atgc intronic sequence ATGC exonic sequenceACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgtttcttttttctgttccttgcaatgaatttgttaagaaattggtggcctttggcatctagaggatagttattgtgaatttcattgtgatacggtgctgatttgaatttactgaatttgccaattatatcttcatctaaaaaaaagttctattttgccag
Basic information
species | Glycine max |
transcript | GLYMA12G08080.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G08080.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os03g01890.2 (Oryza sativa), 5'ss of exon 5
ACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgtttcttttttctgttccttgcaatgaatttgttaagaaattggtggcctttggcatctagaggatagttattgtgaatttcattgtgatacggtgctgatttgaatttactgaatttgccaattatatcttcatctaaaaaaaagttctattttgccag
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GCTCCTTTCAATTGCAGAGGAGACCTTGACAGAGTTCCTCTCAAAGGCTACTGGTACAGCTATTGATTGGGTCCAGATGCCTGGGATGAAGgttccatgctagcactgtttgtttt---tttgttctgtgatttgtgctaagaggtttttacttga-agtgcttactacccttttgttttcatgatgtaag------------------------------------------------------------
upper sequence: GLYMA12G08080.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os10g33960.2 (Oryza sativa), 5'ss of exon 4
ACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgtttcttttttctgttccttgcaatgaatttgttaagaaattggtggcctttggcatctagaggat--agttattgtgaatttcattgtgatacggtgctgatttgaatttactgaatttgccaattatatcttcatctaaaaaaaagttctattttgccag
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ACTCCTTACAATTGCGGAGGAGACCCTGACAGAGTTCCTCTCCAAGGCTACAGGGACTGCTGTTGATTGGGTGCCAATGCCTGGGATGAAGgttgattgc--caacttctcagattcactctgcct-gcatcaaatgacgtgtg-cattcgaatgttctaatttgtgttcccttttctttgataag-------------------------------------------------------------------
upper sequence: GLYMA12G08080.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G469551_T02 (Zea mays), 5'ss of exon 5
ACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgt--ttcttttttctgttccttgcaatgaatt-tgttaagaaattggtggcctttggcatctagaggatagttattgtgaatttcattgtgatacggtgctgatttgaatttactgaatttgccaattatatcttcatctaaaaaaaagttctattttgccag
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GCTCCTTGCAATTGCAGAGGAGACCTTGACAGAGTTCCTCTCAAAGGCTACAGGGACTGCTATTGATTGGGTCCAGATGCCTGGGATGAAGgtgattgataactttagagttttcaatgttctatgctctggcat--gaaaattaagttgattgaaacatgcttatgtcgatctcttttctgtgattag-----------------------------------------------------------------
upper sequence: GLYMA12G08080.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G109987_T01 (Zea mays), 5'ss of exon 5
ACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgtttcttttttctgttccttgcaatgaatttgttaagaaattggtggcctttggcatctagaggatagttat-tgtgaatttcattgtgatacggtgctgatttgaatttactgaatttgccaattatatcttcatctaaaaaaaagttctattttgccag
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ACTCCTTGCGATTGCAGAGGAGACCTTCACAGAGTTCCTCTCAAAGGCTACTGGGACAGCTATTGATTGGGTCCAGATGCCTGGGATGAAGgtta--tatgtcaactct---caatccctgttctttggcttaagttacattttttttccagaaaactgctaggtgctaactacattctgtt----ttctgaag----------------------------------------------------------
upper sequence: GLYMA12G08080.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G042250_T03 (Zea mays), 5'ss of exon 5
ACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgtttcttttttctgttccttgcaatgaatttgttaagaaattggtggcctttggcatctagaggatagttattgtgaatttcattgtgatacggtgctgatttgaatttactgaatttgccaattatatcttcatctaaaaaaaagttctattttgccag
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ACTCCTTGCGATTGCGGAGGAGACCTTCACAGAGTTCCTCTCAAAGGCTACTGGGACAGCTATTGATTGGGTCCAGATGCCTGGGATGAAGgtta--taagtcaactctcaattcttgttctttcccttaagttacatttttta-cagataagtgctacttgct---aactacattttgtt----ttctgattag--------------------------------------------------------
upper sequence: GLYMA12G08080.1 (Glycine max), 5'ss of exon 4
lower sequence: AT5G60690.1 (Arabidopsis thaliana), 5'ss of exon 4
ACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgtttcttttttctgttccttgcaatgaatttgttaagaaattggtggcctttggcatctagaggatagttattgtgaatttcattgtgatacggtgctgatttgaatttactgaatttgccaattatatcttcatctaaaaaaaagttctattttgccag
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ATTGCTCTCAATCGCAGAGGAGACTTTGGCAGAGTTCCTATCCAAGGCTACAGGAACTGCTGTTGATTGGGTTCAGATGCCTGGGATGAAGgttatacgcatctcgtatcattacttaagt-gttattttatctgttgatatctatggcaatatgtgaaatattg-aaatgttgt-gtgttgtag------------------------------------------------------------------
upper sequence: GLYMA12G08080.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv06s0004g02800.t01 (Vitis vinifera), 5'ss of exon 4
ACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgtttctt-ttttctgttccttgcaatgaatttgttaagaaattggtggcctttggcatctagaggatagttattgtgaatttcattgtgatacggtgctgatttgaatttactgaatttgccaattatatcttcatctaaaaaaaagttctattttgccag
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ACTCCTCTCCATTGCAGAGGAGACTTTGGCAGAGTTCCTCTCAAAGGCTACAGGAACTGCTGTCGATTGGGTCCAGATGCCTGGGATGAAGgttttgcattttcttctataaagaattgttttcttcttcattctatatgcttttattgatatagtgtgtttctcac-aatataatgctgaagcgtttctgagttga-ttgtttaattttgttgttgatgctgtcag-------------------------
upper sequence: GLYMA12G08080.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ38766 (Selaginella moellendorffii), 5'ss of exon 4
ACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgt--ttcttttttctgttccttgca-atgaatttgttaagaaattggtggc-ctttggcatctagaggatagttattgtgaatttcattgtgatacggtgctgatttgaatttactgaatttgccaattatatcttcatctaaaaaaaagttctattttgccag
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ACTCTTGGCTATTGCGGAGGAAACTCTGACTGAGTTTCTAGCAAAGGCTAGAGGCACGGCCGTGGATTGGATCCAGTTGCCTGGGATGAAGgtaatgcatatttttccattttggatgtatatatgctgagattattgtgtttctttggcag-------------------------------------------------------------------------------------------------------
upper sequence: GLYMA12G08080.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ14784 (Selaginella moellendorffii), 5'ss of exon 4
ACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgtttcttttttctgttccttgcaatgaatttgttaagaaattggtggcctttggcatctagaggatagttattgtgaatttcattgtgatacggtgctgatttgaatttactgaatttgccaattatatcttcatctaaaaaaaagttctattttgccag
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ACTGTTGAGCATTGCAGAGGAGACTTTGAACTCATTTCTTGCAAAGGCAACAGGAACTGCGGTGGACTGGATCCAGATTCCTGGGATGAAGGCATGCgttttt--ctccttttcttc--ctttccagcggataactcgtgtctgacaactcgactttttttcttgcag-----------------------------------------------------------------------------------
upper sequence: GLYMA12G08080.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ26528 (Selaginella moellendorffii), 5'ss of exon 4
ACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgttt-cttttttctgttccttgcaatgaatttgttaagaaattggtggcctttggcatctagaggatagttattgtgaatttcattgtgatacggtgctgatttgaatttactgaatttgccaattatatcttcatctaaaaaaaagttctattttgccag
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ACTGTTGAGCATTGCAGAGGAGACTTTGAACTCATTTCTTGCAAAGGCAACAGGAACTGCGGTGGACTGGATCCAGATTCCTGGGATGAAGgcatgcgtttttctcctttttttc-----ctttccagcggataactcgtgtctgacaactcgactttttttcttgcag-----------------------------------------------------------------------------------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|24136783|gb|BU927293.1|BU927293EST: CAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAG CCTGGTCCGGATTCGGTTGGGATCTTTGCCATTTCACAAAGTTGCAGTGGA
genomic: CAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgtttcttttt ... attttgccagCCTGGTCCGGATTCGGTTGGGATCTTTGCCATTTCACAAAGTTGCAGTGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgtttcttttttctgttccttgcaatgaatttgttaagaaattggtggcctttggcatctagaggatagttattgtgaatttcattgtgatacggtgctgatttgaatttactgaatttgccaattatatcttcatctaaaaaaaagttctattttgccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG