Sequence
atgc intronic sequence ATGC exonic sequenceGATTGGCTGGTTTATCAACTGCAAAATATTTGGCTGATGCTGGGCATAAACCTATATTGCTGGAAGCAAGAGACGTTCTAGGTGGAAAGgttttcctgctaatttaatccctttcggcaataagttgtcacttagtgcgccttcttttcattattttaacaagctgtttaatgaaataagaaatttgtt...
Basic information
species | Glycine max |
transcript | GLYMA18G00720.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G00720.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os03g08570.1 (Oryza sativa), 5'ss of exon 4
GATTGGCTGGTTTATCAACTGCAAAATATTTGGCTGATGCTGGGCATAAACCTATATTGCTGGAAGCAAGAGACGTTCTAGGTGGAAAGgttttcctgcta--------------atttaatccctttcggcaataagt---tgtcacttagtgcgccttcttttcattatttta-acaagctgtttaatgaaataagaaatttgtt-------------------------------
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GATTAGCTGGTTTATCAACGGCAAAATATCTGGCAGATGCTGGTCATAAACCCATATTGCTTGAGGCAAGGGATGTTTTGGGTGGAAAGgttttactcttatgcttttatgttgcatttaattttttttgttattcattctttttttttttggttgcctttatcttaatagctcatattcactgtt-agtagcatttgtggattattgtttttttttttggggaaatgccttgaacag
upper sequence: GLYMA18G00720.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G410515_T01 (Zea mays), 5'ss of exon 4
GATTGGCTGGTTTATCAACTGCAAAATATTTGGCTGATGCTGGGCATAAACCTATATTGCTGGAAGCAAGAGACGTTCTAGGTGGAAAGgttttcctgctaatttaatccctttcggcaa-----taagttg---tcacttagtgcgccttcttttcattattttaacaagctgtttaatgaaataagaaatttgtt
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GATTGGCTGGTCTATCAACAGCGAAGTATCTGGCAGATGCTGGACATAAACCCATATTGCTTGAGGCAAGAGATGTTTTGGGTGGAAAGgtctgataaatacttgcatgactgtttactactctctgaattgctctcattcactgttttcagcatttgttattttatga---ttttttatgcattgatag-------
upper sequence: GLYMA18G00720.1 (Glycine max), 5'ss of exon 3
lower sequence: AT4G14210.2 (Arabidopsis thaliana), 5'ss of exon 4
GATTGGCTGGTTTATCAACTGCAAAATATTTGGCTGATGCTGGGCATAAACCTATATTGCTGGAAGCAAGAGACGTTCTAGGTGGAAAGgttttcctgctaatttaatccctttcggcaataagttgtcacttagtgcgccttcttttcattattttaacaagctgtttaatgaaataagaaatttgtt--
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GATTGGCTGGATTGTCAACTGCAAAGTACCTGGCTGATGCAGGCCACAAACCTCTGTTGCTTGAAGCAAGAGATGTTCTTGGTGGAAAGgtactttgattggtctca-ctttccgaattacttattgttgttt-gcatttctcattcttatatgatttgctgattcccaaaggctgtaccaattatgtttg
upper sequence: GLYMA18G00720.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv09s0002g00100.t01 (Vitis vinifera), 5'ss of exon 4
GATTGGCTGGTTTATCAACTGCAAAATATTTGGCTGATGCTGGGCATAAACCTATATTGCTGGAAGCAAGAGACGTTCTAGGTGGAAAGgttttcctgctaatttaatccctttcggcaata-agttgtcacttagtgcgccttcttttcattattttaacaagctgtttaatgaaataagaaatttgtt
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GTTTGGCTGGTTTGTCTACTGCAAAATATTTGGCAGATGCAGGTCACAAGCCTATATTGTTGGAAGCAAGAGATGTTTTAGGTGGAAAGgtttatgagatgctctatttttgcccctctttttaatttttagtcatta-aacttctcttgcttattctgtcatataaaattcaaactttctccccttattMapped 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|209699095|gb|BW664324.1|BW664324EST: CTGGGCATAAACCTATATTGCTGGAAGCAAGAGACGTTCTAGGTGGAAAG GTTGCTGCATGGAAAGACAAGGATGGAGACTGGTACGAGACAGGCCTACAC
genomic: CTGGGCATAAACCTATATTGCTGGAAGCAAGAGACGTTCTAGGTGGAAAGgttttcctgc ... attttctaagGTTGCTGCATGGAAAGACAAGGATGGAGACTGGTACGAGACAGGCCTACAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATTGGCTGGTTTATCAACTGCAAAATATTTGGCTGATGCTGGGCATAAACCTATATTGCTGGAAGCAAGAGACGTTCTAGGTGGAAAGgttttcctgctaatttaatccctttcggcaataagttgtcacttagtgcgccttcttttcattattttaacaagctgtttaatgaaataagaaatttgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccctttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ataagaaa