Sequence
atgc intronic sequence ATGC exonic sequence...ttgccttattgtggtgtactctagcccgtgctatttagtgtgtatataaatatatgcgtaagagaataatttatgaatattgttagttcgggtcttgtagGAGGCATGGTTCTTCATAAGGGAGAAATAGCTGAAATGAGGACTGGAGAAGGAAAGACACTGGTTGCTGTTTTGCCAGCTTATTTGAATGCATTGAGTGG
Basic information
species | Glycine max |
transcript | GLYMA10G27810.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G27810.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G01800.1 (Arabidopsis thaliana), 3'ss of exon 2
-ttgccttattgtggtgtactctagcccgtgctatttagtgtgtatataaatatatgcgtaagagaataatttatgaatattgttagttcgggtcttgtagGAGGCATGGTTCTTCATAAGGGAGAAATAGCTGAAATGAGGACTGGAGAAGGAAAGACACTGGTTGCTGTTTTGCCAGCTTATTTGAATGCATTGAGTGG
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gtaacacagtctctgtggaatgttattctaatggtctcactgttatg-aaagacttttttgagtggagtctctctatatggttttaatt--------gcagGTGGTATGGTTCTTCATAAAGGAGAAATAGCTGAAATGAGAACTGGTGAAGGGAAAACGCTTGTTGCTATTTTACCAGCTTATTTGAATGCATTAAGTGG
upper sequence: GLYMA10G27810.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 2
------ttgccttattgtggtgtactctagcccgtgctatttagtgtgtatataaatatatgcgtaagagaataatttatgaatattgttagttcgggtcttgtagGAGGCATGGTTCTTCATAAGGGAGAAATAGCTGAAATGAGGACTGGAGAAGGAAAGACACTGGTTGCTGTTTTGCCAGCTTATTTGAATGCATTGAGTGG
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aaatccttagatcatagttgtttagtcagtggattgtttatttatttgtaaacagaaagcttaatatgaatatcaagt-tgaatgatatctgta-----tttgtagGTGGCATGGTTCTTCATAAGGGAGAAATAGCTGAAATGAGAACTGGAGAAGGAAAGACCCTTGTTGCAATTTTACCAGCTTATTTGAATGCATTAAGTGG
upper sequence: GLYMA10G27810.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ15249 (Selaginella moellendorffii), 3'ss of exon 2
ttgccttattgtggtgtactctagcccgtgctatttagtgtgtatataaatatatgcgtaagagaataatttatgaatattgttagttcgggtcttgtagGAGGCATGGTTCTTCATAAGGGAGAAATAGCTGAAATGAGGACTGGAGAAGGAAAGACACTGGTTGCTGTTTTGCCAGCTTATTTGAATGCATTGAGTGG
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-------------------------------------gtaagca-atggataaaatcaagtgtggtctccttcacagtttcgt--gttct--tctttcagGTGGCATGGTTCTTCACAAGGGTCAGATTGCTGAGATGAAAACTGGAGAAGGAAAAACTCTTGTTGCTGTTCTTCCAGCATATTTGAATGCTTTAAGCGG
upper sequence: GLYMA10G27810.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ08380 (Selaginella moellendorffii), 3'ss of exon 2
ttgccttattgtggtgtactctagcccgtgctatttagtgtgtatataaatatatgcgtaagagaataatttatgaatattgttagttcgggtcttgtagGAGGCATGGTTCTTCATAAGGGAGAAATAGCTGAAATGAGGACTGGAGAAGGAAAGACACTGGTTGCTGTTTTGCCAGCTTATTTGAATGCATTGAGTGG
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-------------------------------------gtaagca-atggataaat---caagtgtggtctccttgacagtttcgtgttct--tctttcagGTGGCATGGTTCTTCACAAGGGTCAGATTGCTGAGATGAAAACTGGAGAAGGAAAAACTCTTGTTGCTGTTCTTCCAGCATATTTGAATGCTTTAAGCGGMapped 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|7796456|gb|AW781853.1|AW781853EST: AGGTTCGAAGAGGGTTCTGGGCCTTCGTCCCTTTGATGTCCAGCTTATAG GAGGCATGGTTCTTCATAAGGGAGAAATAGCTGAAATGAGGACTGGAGAAG
genomic: AGGTTCGAAGAGGGTTCTGGGCCTTCGTCCCTTTGATGTCCAGCTTATAGgtaagtcgtt ... ggtcttgtagGAGGCATGGTTCTTCATAAGGGAGAAATAGCTGAAATGAGGACTGGAGAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataaatatatgcgtaagagaataatttatgaatattgttagttcgggtcttgtagGAGGCATGGTTCTTCATAAGGGAGAAATAGCTGAAATGAGGACTGGAGAAGGAAAGACACTGGTTGCTGTTTTGCCAGCTTATTTGAATGCATTGAGTGG
taagagaataatttat TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgccttattgtggtgtactctagcccgtgctatttagtgtgtatataaatatatgcgtaagagaataatttatgaatattgttagttcgggtcttgtagGAGGCATGGTTCTTCATAAGGGAGAAATAGCTGAAATGAGGACTGGAGAAGGAAAGACACTGGTTGCTGTTTTGCCAGCTTATTTGAATGCATTGAGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
-tgcctta
- - - - -tgtggtg
- - - - - - - - - - - - cccgtgc
- - - - - - - - - - - - - - - - - - -gtgtgta
- - - - - - - - - - - - - - - - - - - - - - - - - tatatgc