Sequence
atgc intronic sequence ATGC exonic sequence...ttgcgtactaggtgaagaataatgtaattttggattgttccattcaactatttatggtgattgttcatcccttattgattcattgatttggtaatttcagTATTGAGATCTACAAGCACCACAAAGAAGAAAGGATAGCCAGAACTTGGGGGACTACTGCCCCTGGTTTGCCGTATGTGGATCAAGCAATAACCAATTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g04210.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os03g53230.1 (Oryza sativa), 3'ss of exon 1
ttgcgtactaggtgaagaataatgtaattttggattgttccattcaactatttatggtgattgttcatcccttattgattcattgatttggt--aatttcagTATTGAGATCTACAAGCACCACAAAGAAGAAAGGATAGCCAGAACTTGGGGGACTACTGCCCCTGGTTTGCCGTATGTGGATCAAGCAATAACCAATTCT
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--gtgtgttcaaaacaatccgacttgatttagcatggttttagttctttttaattagttataccatggcattccctgacatatttttcttctttgttgtcagCATTGAGATCTACAAGCATAACAAAGAAGAAAGGATTGCACGGACATGGGGAACAACTGCACCTGGGCTGCCTTATGTTGATGAGGCGATTACAAATGCT
upper sequence: Vv05s0020g04210.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA20G28980.2 (Glycine max), 3'ss of exon 1
ttgcgtactaggtgaagaataatgtaattttggattgttccattc-aactatttatggtgattgttcatcccttattgattcattgattt-ggtaatttcagTATTGAGATCTACAAGCACCACAAAGAAGAAAGGATAGCCAGAACTTGGGGGACTACTGCCCCTGGTTTGCCGTATGTGGATCAAGCAATAACCAATTCT
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-gttgta-tgaatgattcttgatttattctatagtcattcctttttaactgttttcttctcttcctttcctatggcttatacttttcttttggttatttcagTGTTGAGATTTATAAGCATCCTAAAGAAGAAAGAATAGCCCGAACTTGGGGAACCACTGCCCCTGGCCTACCCTATGTTGAACAAACTATAACCAATGCT
upper sequence: Vv05s0020g04210.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G38760.1 (Glycine max), 3'ss of exon 1
ttgcgtactaggtgaagaataatgtaattttggattgttccattcaactattta----tggtgattgttcatcccttattgattcattgatttggtaatttcagTATTGAGATCTACAAGCACCACAAAGAAGAAAGGATAGCCAGAACTTGGGGGACTACTGCCCCTGGTTTGCCGTATGTGGATCAAGCAATAACCAATTCT
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---tgtacgag-tgattcttgatttattctatagtcatctttttttactgttttgttttgttcctttcttatggcttatacttttcttcttttggttatttcagTATTGAGATTTATAAGCATCCTAAAGAAGAAAGAATAGCCCGAACTTGGGGAACCATTGCCCCTGGCCTACCTTATGTTGAACAAACTATAACCAATGCTMapped 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|161718401|gb|FC065024.1|FC065024EST: AAGGTCGCTCTCGTTGACTCCAAGGACAATACGATTGCGATTTTAAGCAG TATTGAGATCTACAAGCACCACAAAGAAGAAAGGATAGCCAGAACTTGGGG
genomic: AAGGTCGCTCTCGTCGACTCCAAGGACAATACGATTGCGATTTTAAGCAGgtatgataat ... gtaatttcagTATTGAGATCTACAAGCACCACAAAGAAGAAAGGATAGCCAGAACTTGGGG
EST:
gi|71876094|gb|DT025149.1|DT025149EST: AAGGTCGCTCTCGTTGACTCCAAGGACAATACGATTGCGATTTTAAGCAG TATTGAGATCTACAAGCACCACAAAGAAGAAAGGATAGCCAGAACTTGGGG
genomic: AAGGTCGCTCTCGTCGACTCCAAGGACAATACGATTGCGATTTTAAGCAGgtatgataat ... gtaatttcagTATTGAGATCTACAAGCACCACAAAGAAGAAAGGATAGCCAGAACTTGGGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aactatttatggtgattgttcatcccttattgattcattgatttggtaatttcagTATTGAGATCTACAAGCACCACAAAGAAGAAAGGATAGCCAGAACTTGGGGGACTACTGCCCCTGGTTTGCCGTATGTGGATCAAGCAATAACCAATTCT
ttattgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgcgtactaggtgaagaataatgtaattttggattgttccattcaactatttatggtgattgttcatcccttattgattcattgatttggtaatttcagTATTGAGATCTACAAGCACCACAAAGAAGAAAGGATAGCCAGAACTTGGGGGACTACTGCCCCTGGTTTGCCGTATGTGGATCAAGCAATAACCAATTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
-tgcgtac
- - - - - - - aagaata
- - - - - - - - - - - - - - - tggattg
- - - - - - - - - - - - - - - - - - - -ccattca
- - - - - - - - - - - - - - - - - - - - - - - - - - - tggtgat