Sequence
atgc intronic sequence ATGC exonic sequenceGGATGCATGGGACATGGCTGCTGAGCTCTGCCTCTCTCAACTTCCATCTTTAGTTGAGGATCCTAATTCTGAATTTCAGgtgtctggattatttttttgtaataactctgatgtaaagttctttctgaaattgaatattaaataataaaaattggctaaggtattctggtttggcaaggaataatagtaatactaaggaatattttataagttttgagcttacctgaagaagtatgtggttgttctttcag
Basic information
species | Glycine max |
transcript | GLYMA18G44210.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G44210.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os11g01872.1 (Oryza sativa), 5'ss of exon 8
GGATGCATGGGACATGGCTGCTGAGCTCTGCCTCTCTCAACTTCCATCTTTAGTTGAGGATCCTAATTCTGAATTTCAGgtgtctggattatttttttgtaataactctgatgtaaagttctttctgaaattgaatattaaataataaaaattggctaaggtattctggt-ttggcaaggaataatagtaatactaaggaatattttataagttttgagcttacctgaagaagtatgtggttgttctttcag
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GGATGCATGGGACATGGCTGCAGAGATCTGCCTTTCTAAGCTTCCTCAATTAATTGCTGATCCTAATGCAGAGTTTCAGgtgct---attaaccgtctttgctttttttga-atga-------tctaatact-----ttggacatcaacattttgtt--ggcattgttatgttgtttgagaattatcacttcagtacc-atcactttgttcatttc---cttactcaaaccag-------------------
upper sequence: GLYMA18G44210.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G048067_T02 (Zea mays), 5'ss of exon 9
GGATGCATGGGACATGGCTGCTGAGCTCTGCCTCTCTCAACTTCCATCTTTAGTTGAGGATCCTAATTCTGAATTTCAGgtgtctggattatttttttgtaat--aactctgatgtaaagttctttctgaaattgaatattaaataataaaaattggctaaggtattctggtttggcaaggaataatagtaatactaaggaatattttataagttttgagcttacctgaagaagtatgtggttgttctttcag
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GGATGCATGGGACATGGCTGCTGAGATTTGCCTTTCCAAGCTTCCTCAGTTAATTGCTGATCCAAATGCAGAGTTTCAGgt-tctac-ttatcatttagcatttcaatgaacatcagtagtttttgctggtattg--ttttgacatttgaatac------aagtatttcagcattgctaatttcattctctacttcaaaccag--------------------------------------------------
upper sequence: GLYMA18G44210.1 (Glycine max), 5'ss of exon 9
lower sequence: AT5G01770.1 (Arabidopsis thaliana), 5'ss of exon 9
GGATGCATGGGACATGGCTGCTGAGCTCTGCCTCTCTCAACTTCCATCTTTAGTTGAGGATCCTAATTCTGAATTTCAGgtgtctggattatttttttgtaataactctgatgtaaagttctttctgaaattgaatattaaataataaaaattggctaaggtattctggtttggcaaggaataatagtaatactaaggaatattttataagttttgagcttacctgaagaagtatgtggttgttctttcag
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GGATGCATGGGACATGGCTGCTGAAATCTGCCTTTCTCAGCTTCCTCAATTTTTTCTGGACCCAAATACGGAGTTTCAGgtttgt---tttgtccattattatatttcct-tgtaattgtatgatttggtatgatgtctgtcttgttgataatgctt--gttactctcctttatctag-------------------------------------------------------------------------
upper sequence: GLYMA18G44210.1 (Glycine max), 5'ss of exon 9
lower sequence: AT3G08850.1 (Arabidopsis thaliana), 5'ss of exon 9
GGATGCATGGGACATGGCTGCTGAGCTCTGCCTCTCTCAACTTCCATCTTTAGTTGAGGATCCTAATTCTGAATTTCAGgtgtctggattatttttttgtaataactctgatgtaaagttctttctgaaattgaatattaaataataaaaattggctaaggtattctggtttggcaaggaataatagtaatactaaggaatattttataagttttgagcttacctgaagaagtatgtggttgttctttcag
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GGATGCATGGGACATGGCTGCTGAAATCTGTCTTTCTCAGCTTCCCCAACTTGTTCTGGACCCAAGCACAGAGTTCCAGgt-------ttgttttgttttgtatagtttcctgcaa--ttgtatacgacggcgcttgttttgcttataaaacgtgttcctatcctttttctag------------------------------------------------------------------------------
upper sequence: GLYMA18G44210.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv08s0058g00890.t01 (Vitis vinifera), 5'ss of exon 9
GGATGCATGGGACATGGCTGCTGAGCTCTGCCTCTCTCAACTTCCATCTTTAGTTGAGGATCCTAATTCTGAATTTCAGgtgtctggattatttttttgtaataactctgatgtaaagttctt--tctgaaattgaatattaaataataaaaattggctaaggtattctggtttggcaaggaataatagtaatactaaggaatattttataagttttgagcttacctgaagaagtatgtggttgttctttcag
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GGATGCATGGGACATGGCTGCTGAAATCTGCCTTTCTCAGCTTAAGTCATTGGTTGATGATCCCAATGCAGAGTTTCAGgtgcacatttccttaagtttgtgttatacaattatgaatctcttattttgggtttgcttgggtacttgaaacgagcatttagagtacc------tagaagaatgttgtgctggtttta----tcatctcatatgcccagttacgacattgatgtctatacaatgtttttttcagMapped 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|6916382|gb|AW397912.1|AW397912EST: GCCTCTCTCAACTTCCATCTTTAGTTGAGGATCCTAATTCTGAATATCAG CGTAGTACATGTGTCACCGAGCAGGTGACAGCATTTGAAGTATGG
genomic: GCCTCTCTCAACTTCCATCTTTAGTTGAGGATCCTAATTCTGAATTTCAGgtgtctggat ... gttctttcagCGTAGTACATTTTTCACCGAGCAGTTGACAGCATTTGAGGTATGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGATGCATGGGACATGGCTGCTGAGCTCTGCCTCTCTCAACTTCCATCTTTAGTTGAGGATCCTAATTCTGAATTTCAGgtgtctggattatttttttgtaataactctgatgtaaagttctttctgaaattgaatattaaataataaaaattggctaaggtattctggtttggcaaggaataatagtaatactaaggaatattttataagttttgagcttacctgaagaagtatgtggttgttctttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT