Sequence
atgc intronic sequence ATGC exonic sequence...tctctttgtaatgataaatgcatacacttttggttttcttactttgagcatcatttgtgtttattattgtggtattttatacttggtacattttttgcagTTCTCTTGGTCAAAACCTCAAAACAAGCACCTATGTCTGGGAAATTTGCTTTGCAGTGTTCATTTCCATCTCTGGCTTGGTTTTATTTTCATTTCTTATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0050g02560.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os02g15580.1 (Oryza sativa), 3'ss of exon 3
tctctttgtaatgataaatgcatacacttttggttttcttactttgagcatcatttgtgtttattattgtggtattttatacttggtacattttttgcagTTCTCTTGGTCAAAACCTCAAAACAAGCACCTATGTCTGGGAAATTTGCTTTGCAGTGTTCATTTCCATCTCTGGCTTGGTTTTATTTTCATTTCTTATT
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---gtctgtagaaataa---ccttcgtttt--attttc---ccttgaagaacacatac-ttcaatattgt--ttctatatagttttt-tatttgttgcagTTCTCTTGGTCAAAATCTTAAGACAAGCACGTATACATGGGAGAATCTATTTGCTGTTTTCGTCTCGACATCAGGTCTAGTTTTGTTTGCACTCCTTATT
upper sequence: Vv16s0050g02560.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA04G41610.2 (Glycine max), 3'ss of exon 5
tctctttgtaatgataa-atgcatacacttttggttttcttactttgagcatcatttgtgtttattattgtggtattttatacttgg---tacattttttgcagTTCTCTTGGTCAAAACCTCAAAACAAGCACCTATGTCTGGGAAATTTGCTTTGCAGTGTTCATTTCCATCTCTGGCTTGGTTTTATTTTCATTTCTTATT
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-agttgcatgttgttagtatgttttgaattttgattttgttg--ttgagcat-atttttaccaagttatctgacattctgtatatatacctccatctattgcagTTCTCTTGGTCAGAACCTTGCAACAAGTACCTATGTTTGGGAAATCTGCTTTGCAATTTTCATTTCAATTGCTGGTTTGGTGTTATTTGCATTCCTCATT
upper sequence: Vv16s0050g02560.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA14G31940.1 (Glycine max), 3'ss of exon 4
tctctttgtaatgataaatgcatacacttttggttttcttactttgagcatc--atttgtgtttattattgtggtattttatacttggtacattttttgcagTTCTCTTGGTCAAAACCTCAAAACAAGCACCTATGTCTGGGAAATTTGCTTTGCAGTGTTCATTTCCATCTCTGGCTTGGTTTTATTTTCATTTCTTATT
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-taaattttaaagttgagcataatcaccatattattactgaagtt-atcatctaatattctgtaattattcctccattgggagctggatgcttttattgcagTTCTCTTGGTCAGAACCTGGCAACAAGTACCTATGTTTGGGAAATCAGTTTTGCAGTTTTCATTTCTGTATCTGGTTTGGTATTATTTTCATTCCTCATT
upper sequence: Vv16s0050g02560.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G13200.1 (Glycine max), 3'ss of exon 5
tctctttgtaatgataa-atgcatacacttttggttttcttactttgagcatcatttgtgtttattattgtggtattttatac---ttggtacattttttgcagTTCTCTTGGTCAAAACCTCAAAACAAGCACCTATGTCTGGGAAATTTGCTTTGCAGTGTTCATTTCCATCTCTGGCTTGGTTTTATTTTCATTTCTTATT
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-agttgcatgttgttagtatgttttgaattttgatttttttg--ttgagc-caatttttacaaagttatctgacattctgtatatattcctccatctattgcagTTCTCTTGGTCAGAACCTTGCAACAAGTACCTATGTTTGGGAAATCAGCTTTGCTATTTTCATTTCAATTGCTGGTCTGGTGTTATTTGCATTCCTCATTMapped 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|294967223|gb|GW840098.1|GW840098EST: TTTCCACAGAAGTTCTTTTACTGTTTTTGGTGGGGCCTGCAAAATCTGAG TTCTCTTGGTCAAAACCTCAAAACAAGCACCTATGTCTGGGAAATTTGCTT
genomic: TTTCCACAGAAGTTCTTTTACTGTTTTTGGTGGGGCCTGCAAAATCTGAGgtatgcccat ... ttttttgcagTTCTCTTGGTCAAAACCTCAAAACAAGCACCTATGTCTGGGAAATTTGCTT
EST:
gi|161715417|gb|FC068048.1|FC068048EST: TTTCCACAGAAGTTCTTTTACTGTTTTTGGTGGGGCCTGCAAAATCTGAG TTCTCTTGGTCAAAACCTCAAAACAAGCACCTATGTCTGGGAAATTTGCTT
genomic: TTTCCACAGAAGTTCTTTTACTGTTTTTGGTGGGGCCTGCAAAATCTGAGgtatgcccat ... ttttttgcagTTCTCTTGGTCAAAACCTCAAAACAAGCACCTATGTCTGGGAAATTTGCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagcatcatttgtgtttattattgtggtattttatacttggtacattttttgcagTTCTCTTGGTCAAAACCTCAAAACAAGCACCTATGTCTGGGAAATTTGCTTTGCAGTGTTCATTTCCATCTCTGGCTTGGTTTTATTTTCATTTCTTATT
catttttt CT-rich tract
tttattattgtggtat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctctttgtaatgataaatgcatacacttttggttttcttactttgagcatcatttgtgtttattattgtggtattttatacttggtacattttttgcagTTCTCTTGGTCAAAACCTCAAAACAAGCACCTATGTCTGGGAAATTTGCTTTGCAGTGTTCATTTCCATCTCTGGCTTGGTTTTATTTTCATTTCTTATT
- - - - -aatgataa
- - - - - - - - - - catacac
- - - - - - - - - - - - - - - - - - - - - - - agcatca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgtggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tacttgg