Sequence
atgc intronic sequence ATGC exonic sequencegtgggtgcctgccttgcccatgaaagcctgtctttaactgtttgggtttgctgtaattttattgcagatcctctgtcctgaatatttatatagaaaaagtgccagcaaataacccctgctctcagctttgagattaatttctttttttttcagGAGTGAAGCGTGTTGTAGATTTATGTGCTGCCCCAGGTAGCTGGAGTCAG
Basic information
species | Glycine max |
transcript | GLYMA15G07970.3 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G07970.4 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os06g49140.1 (Oryza sativa), 3'ss of exon 2
gtgggtgcctgccttgcccatgaaagcctgtctttaactgtttgggtttgctgtaattttattgcagatcctctgtcctgaatatttatatagaaaaagtgccagcaaataacccctgctctcagctttgagattaatttctttttttttcagGAGTGAAGCGTGTTGTAGATTTATGTGCTGCCCCAGGTAGCTGGAGTCAG
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-------------------------gtctcacctcacccgcttaa--ttgctacta----attgctaaccctttctgccactggcttccat-gaatgaacatttacgaa-----ctgactaagagatgcaaaaaaaattgc----------agGAGTGAAGCGTGTTGTTGATCTGTGCGCTGCTCCCGGAAGCTGGAGTCAG
upper sequence: GLYMA15G07970.4 (Glycine max), 3'ss of exon 3
lower sequence: AT5G01230.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgggtgcctgccttgcccatgaaagcctgtctttaactgtttgggtttg--ctgtaattttattgcagatcctctgtcctgaa---tatttatatagaaaaagtgccagcaaataacccctgctctcagctttgaga-ttaatttctttttttttcagGAGTGAAGCGTGTTGTAGATTTATGTGCTGCCCCAGGTAGCTGGAGTCAG
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gtggtctcttgaatccttaatcttatctctcatatgaaccctcattcacagactcaagcctaatcacgggacatgagtccaaaaacctgctta-attgaatgaatgc-aatacttttgatagacgtataactcaccgactttgtcttaattatatgcagGTGTGAAGAGGGTCGTAGATTTATGTGCTGCACCTGGTAGCTGGAGTCAG
upper sequence: GLYMA15G07970.4 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0007g01960.t01 (Vitis vinifera), 3'ss of exon 2
gtgggtgcctgccttgcccatgaaagcctgtctttaactgtttgggtttgctgtaattttattgcagatcctctgtcctgaatatttatatagaaaaagtgccagcaaataacccctgctctcagctttgagattaatttctttttttttcagGAGTGAAGCGTGTTGTAGATTTATGTGCTGCCCCAGGTAGCTGGAGTCAG
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-----------------------------------------tcaaacat-ttttgagtcttttttggatgcgtttttctatttatctatgatttgagattatt---------ttttcacctttagctgtttgat--accaatttgattttcagGGGTCAAGCGTGTGGTAGATCTATGTGCAGCCCCTGGTAGCTGGAGTCAGMapped 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|7926380|gb|AW832406.1|AW832406EST: AAGTGCGTTTAAACTCCTTCAGATAGACGAGGAATTCAACCTTTTTGATG GAGTGAAGCGTGTTGTAGATTTATGTGCTGCCCCAGGTAGCTGGAGTCAG
genomic: AAGTGCGTTTAAACTCCTTCAGATAGACGAGGAATTCAACCTTTTTGATGgtgggtgcct ... tttttttcagGAGTGAAGCGTGTTGTAGATTTATGTGCTGCCCCAGGTAGCTGGAGTCAG
EST:
gi|151411265|gb|EV281076.1|EV281076EST: AAGTGCGTTTAAACTCCTTCAGATAGACGAGGAATTCAACCTTTTTGATG GAGTGAAGCGTGTTGTAGATTTATGTGCTGCCCCAGGTAGCTGGAGTCAG
genomic: AAGTGCGTTTAAACTCCTTCAGATAGACGAGGAATTCAACCTTTTTGATGgtgggtgcct ... tttttttcagGAGTGAAGCGTGTTGTAGATTTATGTGCTGCCCCAGGTAGCTGGAGTCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgccagcaaataacccctgctctcagctttgagattaatttctttttttttcagGAGTGAAGCGTGTTGTAGATTTATGTGCTGCCCCAGGTAGCTGGAGTCAG
ttaatttctttttttt CT-rich tract
tttgagattaatttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgggtgcctgccttgcccatgaaagcctgtctttaactgtttgggtttgctgtaattttattgcagatcctctgtcctgaatatttatatagaaaaagtgccagcaaataacccctgctctcagctttgagattaatttctttttttttcagGAGTGAAGCGTGTTGTAGATTTATGTGCTGCCCCAGGTAGCTGGAGTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA