Sequence
atgc intronic sequence ATGC exonic sequence...aaccgaaatttcaaagtacaaagaaggagataatcaccttttcaaatgcctttatttttctctcataaactaattgcgattatggtgggtatcattgcagGACTGTTAAGGTGTGGGAAGAGTTGCAGGCTAAGATGGACAAACTATCTGAGGCCAGACTTGAAAAGAGGTCTGTTGTCAGATTTTGAAGAGCAGATGGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0006g00450.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G33620.1 (Glycine max), 3'ss of exon 1
aaccgaaatttcaaagtacaaagaaggagat---aatcaccttttcaaatgcctttatttttctctcataaactaattgcgattatggtgggtatcat-tgcagGACTGTTAAGGTGTGGGAAGAGTTGCAGGCTAAGATGGACAAACTATCTGAGGCCAGACTTGAAAAGAGGTCTGTTGTCAGATTTTGAAGAGCAGATGGT
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---ataaagcttaatgttcatttgcattttttttattcagactctcaaaagaaagtaataatcaat-atggtgacttagcaaatttggttattctttcatgcagGGCTGTTAAGGTGTGGCAAAAGTTGCAGGCTCAGGTGGACAAATTATCTGAGGCCAGACTTGAAGAGAGGCCTTCTATCAGAATATGAAGAGAAAATGGT
upper sequence: Vv14s0006g00450.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G41180.1 (Glycine max), 3'ss of exon 1
--aaccgaaatttcaaagtacaaagaaggagataatcaccttttcaaatgcctttatttttctctcataaactaattgcgattatggtgggtatcattgcagGACTGTTAAGGTGTGGGAAGAGTTGCAGGCTAAGATGGACAAACTATCTGAGGCCAGACTTGAAAAGAGGTCTGTTGTCAGATTTTGAAGAGCAGATGGT
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cttcatgtttgttcgttttgtaattttgaataaaaatgc-taggcagaaacaattacttcactaaaattaaatt-taacaattggagtgtgacttcatgcagGGCTTTTAAGGTGTGGGAAGAGTTGCAGGCTCAGGTGGACAAATTACTTGAGGCCAGACTTAAAGAGAGGTCTTTTATCAGAATACGAAGAAAAAATGGT
upper sequence: Vv14s0006g00450.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA14G39530.1 (Glycine max), 3'ss of exon 1
aaccgaaatttcaaagtacaaaga---aggagataatcaccttttcaaatgcctttatttttctctcat--aaactaattgcgattatggtgggtatcattgcagGACTGTTAAGGTGTGGGAAGAGTTGCAGGCTAAGATGGACAAACTATCTGAGGCCAGACTTGAAAAGAGGTCTGTTGTCAGATTTTGAAGAGCAGATGGT
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---taatcttcaaaaacataaggttacaacaaaagttagagcttgcagaaacaatgactttactaaaattaaaactaa--acaattggagtgtgacttcatgcagGACTATTAAGGTGTGGGAAGAGTTGCAGGCTGAGGTGGACAAATTACTTGAGGCCAGACTTAAAGAGAGGCCTTTTATCTGAATATGAAGAAAAAATGGT
upper sequence: Vv14s0006g00450.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA18G04580.1 (Glycine max), 3'ss of exon 1
---aaccgaaatttcaaagtacaaagaaggagataatcaccttttcaaatgcctttatttttctctcataaactaattgcgattatggtgggtatcat-tgcagGACTGTTAAGGTGTGGGAAGAGTTGCAGGCTAAGATGGACAAACTATCTGAGGCCAGACTTGAAAAGAGGTCTGTTGTCAGATTTTGAAGAGCAGATGGT-
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ataaagcttcatgttcatttgcattttttttt-tattgacactctcagaagaaagtaatca-ctatggtga-ctaa--gcaaatttggttattccttcatgcaggGCTGTTAAGATGTGGAAAAAGTTGCAGGCTCAGGTGGACAAATTACCTGAGGCCAGACCTGAAGAGAGGCCTTCTATCAGAATATGAAGAGAAAATGGTCMapped 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|71856377|gb|DT005432.1|DT005432EST: CATTCTCACCAATGGCCAATGCTGTTGGAGAGCTGTTCCTAAGCTTGCAG GCCTGTTAAGGTGTGGGAAGAGTTGCAGGCTAAGATGGACAAACTATCTGA
genomic: CATTCTCACCAATGGCCAATGCTGTTGGAGAGCTGTTCCTAAACTTGCAGgtctcccaca ... atcattgcagGACTGTTAAGGTGTGGGAAGAGTTGCAGGCTAAGATGGACAAACTATCTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgcctttatttttctctcataaactaattgcgattatggtgggtatcattgcagGACTGTTAAGGTGTGGGAAGAGTTGCAGGCTAAGATGGACAAACTATCTGAGGCCAGACTTGAAAAGAGGTCTGTTGTCAGATTTTGAAGAGCAGATGGT
aactaat putative branch site (score: 2)
tttatttttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaccgaaatttcaaagtacaaagaaggagataatcaccttttcaaatgcctttatttttctctcataaactaattgcgattatggtgggtatcattgcagGACTGTTAAGGTGTGGGAAGAGTTGCAGGCTAAGATGGACAAACTATCTGAGGCCAGACTTGAAAAGAGGTCTGTTGTCAGATTTTGAAGAGCAGATGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
aaccgaa
- - - - - - - - - caaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaactaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggtggg