Sequence
atgc intronic sequence ATGC exonic sequenceACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgttttttttttcttttctgttccttgcaatgaatttgttaagaaattggtgacctttggcatctagaggacagcttttgtgaatttcgttgtgataccccgttttgaattttctaaatttgtcaattatctcttcatctaagaaaaagttctttttgccag
Basic information
species | Glycine max |
transcript | GLYMA11G20520.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G20520.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os03g01890.2 (Oryza sativa), 5'ss of exon 5
ACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgttttttttttcttttctgttccttgcaatgaatttgttaagaaattggtgacctttggcatctagaggacagcttttgtgaatttcgttgtgataccccgttttgaattttctaaatttgtcaattatctcttcatctaagaaaaagttctttttgccag
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GCTCCTTTCAATTGCAGAGGAGACCTTGACAGAGTTCCTCTCAAAGGCTACTGGTACAGCTATTGATTGGGTCCAGATGCCTGGGATGAAGgttccatgctagcactgtttgtttt--------tttgttctgtgatttgtgctaagaggtttttacttga-agtgcttacta---cccttttgttttcatgatgtaag-----------------------------------------------------
upper sequence: GLYMA11G20520.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os10g33960.2 (Oryza sativa), 5'ss of exon 4
ACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgtttttttttt-cttttctgttccttgcaatgaatttgttaagaaattggtgacctttggcatctagaggacagcttttgtgaatttcgttgtgataccccgttttgaattttctaaatttgtcaattatctcttcatctaagaaaaagttctttttgccag
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ACTCCTTACAATTGCGGAGGAGACCCTGACAGAGTTCCTCTCCAAGGCTACAGGGACTGCTGTTGATTGGGTGCCAATGCCTGGGATGAAGgttgattgccaacttctcagattcactc--tgcctgcatcaaatgacgtgtgcattcgaatgttc------taatttgtgttcccttttctttgataag---------------------------------------------------------------
upper sequence: GLYMA11G20520.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G469551_T02 (Zea mays), 5'ss of exon 5
ACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgttttttttttcttttctgttccttgcaatgaatt-tgttaagaaattggtgacctttggcatctagaggacagcttttgtgaatttcgttgtgataccccgttttgaattttctaaatttgtcaattatctcttcatctaagaaaaagttctttttgccag
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GCTCCTTGCAATTGCAGAGGAGACCTTGACAGAGTTCCTCTCAAAGGCTACAGGGACTGCTATTGATTGGGTCCAGATGCCTGGGATGAAGgtgattgataactttagagtttt---caatgttctatgctctggcat--gaaaattaagttgattgaaacat-gcttatgtcgatctcttttctgtgattag------------------------------------------------------------
upper sequence: GLYMA11G20520.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G109987_T01 (Zea mays), 5'ss of exon 5
ACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgttttttttttcttttctgttccttgcaatgaatttgttaagaaattggtgacctttggcatctagaggacagcttt-tgtgaatttcgttgtgataccccgttttgaattttctaaatttgtcaattatctcttcatctaagaaaaagttctttttgccag
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ACTCCTTGCGATTGCAGAGGAGACCTTCACAGAGTTCCTCTCAAAGGCTACTGGGACAGCTATTGATTGGGTCCAGATGCCTGGGATGAAGgttatatgtcaactctcaatccct--------gttcttt--ggcttaagttacattttttttccagaaaactgctaggtgctaactacattctgtt------ttctgaag----------------------------------------------------
upper sequence: GLYMA11G20520.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G042250_T03 (Zea mays), 5'ss of exon 5
ACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgttttttttttcttttctgttccttgcaatgaatttgttaagaaattggtgacctttggcatctagaggacagcttttgtgaatttcgttgtgataccccgttttgaattttctaaatttgtcaattatctcttcatctaagaaaaagttctttttgccag
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ACTCCTTGCGATTGCGGAGGAGACCTTCACAGAGTTCCTCTCAAAGGCTACTGGGACAGCTATTGATTGGGTCCAGATGCCTGGGATGAAGgttataagtcaactctcaattcttgttctt---tcccttaagttac-----attttttacagataagtgcta---cttgctaactacattttgtt-ttctgattag-------------------------------------------------------
upper sequence: GLYMA11G20520.1 (Glycine max), 5'ss of exon 4
lower sequence: AT5G60690.1 (Arabidopsis thaliana), 5'ss of exon 4
ACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgttttttttttcttttctgttccttgcaatgaatttgttaagaaattggtgacctttggcatctagaggacagcttttgtgaatttcgttgtgataccccgttttgaattttctaaatttgtcaattatctcttcatctaagaaaaagttctttttgccag
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ATTGCTCTCAATCGCAGAGGAGACTTTGGCAGAGTTCCTATCCAAGGCTACAGGAACTGCTGTTGATTGGGTTCAGATGCCTGGGATGAAGgttatacgcatctcgtatcattacttaagtg--ttattttatctgttgat-atctatggcaatatgtgaaatattgaaatgttgtgtgttgtag-------------------------------------------------------------------
upper sequence: GLYMA11G20520.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv06s0004g02800.t01 (Vitis vinifera), 5'ss of exon 4
ACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgttttttttttcttttctgttccttgcaatgaatttgttaagaaattggtgacctttggcatctagaggacagcttttgtga-atttcgttgtgataccccgttttgaattttctaaatttgtcaattatctcttcatctaagaaaaagttctttttgccag
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ACTCCTCTCCATTGCAGAGGAGACTTTGGCAGAGTTCCTCTCAAAGGCTACAGGAACTGCTGTCGATTGGGTCCAGATGCCTGGGATGAAGgttttgcattt-tcttctat---aaagaattgttttcttcttcattctatatgcttttattgatatagtgtgtttctcacaatataatgctgaagcgtttctgagttgattgtttaattttgttgttgatgctgtcag------------------------
upper sequence: GLYMA11G20520.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ38766 (Selaginella moellendorffii), 5'ss of exon 4
ACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgttttttttttcttttctgttccttgcaatgaatttgttaagaaattggtgac-ctttggcatctagaggacagcttttgtgaatttcgttgtgataccccgttttgaattttctaaatttgtcaattatctcttcatctaagaaaaagttctttttgccag
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ACTCTTGGCTATTGCGGAGGAAACTCTGACTGAGTTTCTAGCAAAGGCTAGAGGCACGGCCGTGGATTGGATCCAGTTGCCTGGGATGAAGgtaatgcatatttttcc--attttggatgtatatatgctgagattattgtgtttctttggcag---------------------------------------------------------------------------------------------------
upper sequence: GLYMA11G20520.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ14784 (Selaginella moellendorffii), 5'ss of exon 4
ACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgttt---tttttttcttttctgttccttgcaatgaatttgttaagaaattggtgacctttggcatctagaggacagcttttgtgaatttcgttgtgataccccgttttgaattttctaaatttgtcaattatctcttcatctaagaaaaagttctttttgccag
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ACTGTTGAGCATTGCAGAGGAGACTTTGAACTCATTTCTTGCAAAGGCAACAGGAACTGCGGTGGACTGGATCCAGATTCCTGGGATGAAGGCATGCgtttttctccttttcttcctttccagcggat---------aactcgtg---tctgacaactcgactttttttcttgcag-------------------------------------------------------------------------------
upper sequence: GLYMA11G20520.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ26528 (Selaginella moellendorffii), 5'ss of exon 4
ACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgttt---tttttttcttttctgttccttgcaatgaatttgttaagaaattggtgacctttggcatctagaggacagcttttgtgaatttcgttgtgataccccgttttgaattttctaaatttgtcaattatctcttcatctaagaaaaagttctttttgccag
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ACTGTTGAGCATTGCAGAGGAGACTTTGAACTCATTTCTTGCAAAGGCAACAGGAACTGCGGTGGACTGGATCCAGATTCCTGGGATGAAGgcatgcgtttttctcctttttttcctttccagcggat---------aactcgtg---tctgacaactcgactttttttcttgcag-------------------------------------------------------------------------------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|193582951|gb|FK543163.1|FK543163EST: CAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAG CCTGGTCCGGATTCGGTTGGGATCTTTGCC
genomic: CAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgttttttttt ... tttttgccagCCTGGTCCGGATTCGGTTGGGATCTTTGCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAGgttttttttttcttttctgttccttgcaatgaatttgttaagaaattggtgacctttggcatctagaggacagcttttgtgaatttcgttgtgataccccgttttgaattttctaaatttgtcaattatctcttcatctaagaaaaagttctttttgccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG