Sequence
atgc intronic sequence ATGC exonic sequence...gacttgaaagttgaaacaagtcttcttacttacattttctataatgtttgttttattattatttgaacttgaagaaattttggttcttgcattgtttcagCAACTGAAGAGGAGGCAGCAGAGGCTTATGACATTGCAGCCATAAAGTTCAGAGGTTCGAGCGCCGTAACCAATTTCGAGATGAGTCGATATGACGTCGA
Basic information
species | Glycine max |
transcript | GLYMA08G38190.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G38190.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G65510.1 (Arabidopsis thaliana), 3'ss of exon 7
gacttgaaagttgaaacaagtcttcttacttacattttctataatgtttgttttattattatttgaacttgaagaaattttggttcttgcat-tgttt-cagCAACTGAAGAGGAGGCAGCAGAGGCTTATGACATTGCAGCCATAAAGTTCAGAGGTTCGAGCGCCGTAACCAATTTCGAGATGAGTCGATATGACGTCGA
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------------gtaaaacgttatcttagt-agaca------aatgtcctattcttcaccctgaaaaatccagtca---ttgattcgtatatatgtgtatagCAACCGAAGAGGAAGCAGCAGAGGCTTATGACATTGCAGCCATAAAGTTCAGAGGAATCAACGCAGTAACTAACTTTGAGATGAACAGGTATGACATTGA
upper sequence: GLYMA08G38190.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv00s1291g00010.t01 (Vitis vinifera), 3'ss of exon 7
---gacttgaaa-gttgaaacaagtcttcttacttacattttctataatgtttgttttattattatttgaacttgaagaaattttggttcttgcattgtttcagCAACTGAAGAGGAGGCAGCAGAGGCTTATGACATTGCAGCCATAAAGTTCAGAGGTTCGAGCGCCGTAACCAATTTCGAGATGAGTCGATATGACGTCGA
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ggtcactggacgtgctaaaattaggctaatgtcttaaaagaggggtctcaaaaagaagcatattgttcacat---aataatcccttgtaact-cgtggtgtcagCCACCGAAGAGGAAGCAGCAGAGGCATATGACATAGCAGCCATAAAGTTCAGGGGTGTGAATGCGGTGACCAATTTCGAGATGAACCGATATGATGTGGA
upper sequence: GLYMA08G38190.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv00s0772g00020.t01 (Vitis vinifera), 3'ss of exon 6
gacttgaaagttgaaacaagtcttcttacttacattttctataatgtttgttttattattat-----ttgaacttgaagaaattttggttcttgcattgtttcagCAACTGAAGAGGAGGCAGCAGAGGCTTATGACATTGCAGCCATAAAGTTCAGAGGTTCGAGCGCCGTAACCAATTTCGAGATGAGTCGATATGACGTCGA
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-----ggtcactggacgtgctataattaggctaatgtcttaaaagaggggtctcaaaaagaagcatattgttcacataataatcccttgtaactcgtggtatcagCCACCGAAGAGGAAGCAGCAGAGGCATATGACATAGCAGCCATAAAGTTCAGGGGTGTGAATGCGGTGACCAATTTCGAGATGAACCGATATGATGTGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttgttttattattatttgaacttgaagaaattttggttcttgcattgtttcagCAACTGAAGAGGAGGCAGCAGAGGCTTATGACATTGCAGCCATAAAGTTCAGAGGTTCGAGCGCCGTAACCAATTTCGAGATGAGTCGATATGACGTCGA
ttgtttc CT-rich tract
ttttattattatttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gacttgaaagttgaaacaagtcttcttacttacattttctataatgtttgttttattattatttgaacttgaagaaattttggttcttgcattgtttcagCAACTGAAGAGGAGGCAGCAGAGGCTTATGACATTGCAGCCATAAAGTTCAGAGGTTCGAGCGCCGTAACCAATTTCGAGATGAGTCGATATGACGTCGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - gaaacaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcttgc