Sequence
atgc intronic sequence ATGC exonic sequencegtaaagattagatttacatcactgatctgcagaaaaatcctttaaacttgcatttttctctcttttccagtcatttttagagtcccgatatctcatttttaattggattttcagTGGACAGAAAATCTTTATTGAGTACATAATGCTTGATGAGGTGAATGATGAAGAGCAACATGCTCACCAGCTTGGGAAATTGCTGGAGACATTTCAAGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0091g00820.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os03g10520.1 (Oryza sativa), 3'ss of exon 6
gtaaagattagatttacatcactgatctgcagaaaaatcctttaaacttgcatttttctctcttttccagtcatttttagagtcccgatatctcatttttaattggattttcagTGGACAGAAAATCTTTATTGAGTACATAATGCTTGATGAGGTGAATGATGAAGAGCAACATGCTCACCAGCTTGGGAAATTGCTGGAGACATTTCAAGTG
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gtaagaataagatt---actaaatatcaccatcagtgccaaatataagaaccgatagctttgagtttcaat-------aaacacctga------atgttcgatca------cagCAAGCAGACCATCTTTATTGAGTACATCATGCTTGATGGAGTTAACGATCAGGAGCAGCATGCCCACCAGCTTGGTAAATTACTTGAAATGTTTAAAGCG
upper sequence: Vv03s0091g00820.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G45360.1 (Glycine max), 3'ss of exon 4
gtaaagattagatttacatcactgatctgcagaaaaatcctttaaacttgcatttttctctcttttccagtcatttttag-agtcccgatatctcatttttaattggattttcagTGGACAGAAAATCTTTATTGAGTACATAATGCTTGATGAGGTGAATGATGAAGAGCAACATGCTCACCAGCTTGGGAAATTGCTG-GAGACATTTCAAGTG
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-------------------------gtcattcatgctttctctcaaca---atttctctcattttttaagccattaatattaatattaatatttcatccttaattatagTCT------GCAGAAAATATTTATTGAATACATAATGCTTGATGGGGTGAACGACGAAGAGCACCATGCTCACCAATTGGGAAAACTGTCAAGAGACATTTCAAGT-
upper sequence: Vv03s0091g00820.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G00390.1 (Glycine max), 3'ss of exon 3
gtaaagattagatttacatcactgatctgcagaaaaatcctttaaacttgcatttttctctcttttccagtcatttttagagtcccgatatctcatttttaattggattttcagTGGACAGAAAATCTTTATTGAGTACATAATGCTTGATGAGGTGAATGATGAAGAGCAACATGCTCACCAGCTTGGGAAATTGCTGGAGACATTTCAAGTG
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------------------------------------gtcattcatactttctctcaacaatttctctcatt--tttttaagccattaatattaatatttcatccttaattatagTCTGCAGAAAATATTTATTGAATACATAATGCTTGATGGGGTGAACGACGAAGAGCACCATGCCCACCTATTGGGAAAACTGTTGGAGACATTTCAAGTG
upper sequence: Vv03s0091g00820.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G19630.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaaagattagatttacatcactgatc---tgcagaaaaatcctttaaacttgcatttttctctcttttccagtcatttttagagtcccgatatctcatttttaattggattttcagTGGACAGAAAATCTTTATTGAGTACATAATGCTTGATGAGGTGAATGATGAAGAGCAACATGCTCACCAGCTTGGGAAATTGCTGGAGACATTTCAAGTG
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--gtagttcatgtactcttgactggttcgttgctgttaaata--ttaaaaccacaatcccttcagttacattgacgattataacatt---atgccacattgtcattggatttaacagTCAACAAAAGATCTTCATTGAGTACATAATGCTTGATGGAGTAAATGATCAAGAGCAGCACGCTCATCTACTAGGCGAATTGCTAAAGACATTTCAAGTGMapped 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|34543445|gb|CF511677.1|CF511677EST: TTTCCTTTGGAAAAGCTCATGGATGCCCTGCAGACCTATCAAACGAATAG TGGACAGAAAATCTTTATTGAGTACATAATGCTTGATGAGGTGAATGATGA
genomic: TTTCCTTTGGAAAAGCTCATGGATACCCTGCGGACCTACCAAACGAATAGgtaaagatta ... ggattttcagTGGACAGAAAATCTTTATTGAGTACATAATGCTTGATGAGGTGAATGATGA
EST:
gi|34543530|gb|CF511762.1|CF511762EST: TTTCCTTTGGAAAAGCTCATGGATGCCCTGCAGACCTATCAAACGAATAG TGGACAGAAAATCTTTATTGAGTACATAATGCTTGATGAGGTGAATGATGA
genomic: TTTCCTTTGGAAAAGCTCATGGATACCCTGCGGACCTACCAAACGAATAGgtaaagatta ... ggattttcagTGGACAGAAAATCTTTATTGAGTACATAATGCTTGATGAGGTGAATGATGA
EST:
gi|71854828|gb|DT003883.1|DT003883EST: TTTCCTTTGGAAAAGCTCATGGATGCCCTGCAGACCTATCAAACGAATAG TGGACAGAAAATCTTTATTGAGTA
genomic: TTTCCTTTGGAAAAGCTCATGGATACCCTGCGGACCTACCAAACGAATAGgtaaagatta ... ggattttcagTGGACAGAAAATCTTTATTGAGTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctcttttccagtcatttttagagtcccgatatctcatttttaattggattttcagTGGACAGAAAATCTTTATTGAGTACATAATGCTTGATGAGGTGAATGATGAAGAGCAACATGCTCACCAGCTTGGGAAATTGCTGGAGACATTTCAAGTG
ttttaat putative branch site (score: 3)
ttttc putative PPT
atatctcatttttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaagattagatttacatcactgatctgcagaaaaatcctttaaacttgcatttttctctcttttccagtcatttttagagtcccgatatctcatttttaattggattttcagTGGACAGAAAATCTTTATTGAGTACATAATGCTTGATGAGGTGAATGATGAAGAGCAACATGCTCACCAGCTTGGGAAATTGCTGGAGACATTTCAAGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA