Sequence
atgc intronic sequence ATGC exonic sequencegtattctttataaacaaactatcctcaatctcacctccttctctgtttgtgtgtgtgtttgacccttcaaaattacgttaatgtacaacagcctaagaggattcttcatggtttattttttgcagGTCTGCAAAGGTGTGGGAAGAGCTGCAGATTGAGGTGGATTAACTACTTGAGGCCTGATTTGAAGAGAGGCACATTCTCCCTACAGGAAGAGAATCTTAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g02480.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G27940.1 (Glycine max), 3'ss of exon 1
gtattctttataaacaaactatcctcaatctcacctccttctctgtttgtgtgtgtgtttgacccttcaaaattacgttaatgtacaacagcctaagaggattcttcatggtttattttttgcagGTCTGCAAAGGTGTGGGAAGAGCTGCAGATTGAGGTGGATTAACTACTTGAGGCCTGATTTGAAGAGAGGCACATTCTCCCTACAGGAAGAGAATCTTAT
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-----gtaattaatcaaattatcc--aactaagcctcctttaatctcctt---tgtaacaaaa-----agagaaatttttttattcatctctctgtgaatgat----atgaattg------gcagGTTTGCAAAGGTGTGGTAAGAGCTGCAGGCTTAGGTGGATCAATTACTTAAGGCCTGATTTAAAGAGAGGAACATTCTCACAAGAAGAAGAAAACCTTAT
upper sequence: Vv07s0005g02480.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA19G41010.1 (Glycine max), 3'ss of exon 1
gtattctttataaacaaactatcctcaatctcacctccttctctgtttgtgtgtgtgtttgacccttcaaaattacgttaatgtacaacagcctaagaggattct---tcatggtttattttttgcagGTCTGCAAAGGTGTGGGAAGAGCTGCAGATTGAGGTGGATTAACTACTTGAGGCCTGATTTGAAGAGAGGCACATTCTCCCTACAGGAAGAGAATCTTAT
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-------------------------------gtactccaacactctata-gtctataccaccccatttagcataaaatcaagggaagaaaattgtggttcatttcctgtcaatgtcgtttattggcagGTTTGCAGAGGTGCGGCAAGAGCTGCAGGCTTAGGTGGATCAATTACTTAAGGCCTGATTTGAAGAGAGGTACATTCTCACAAGAGGAGGAAACTCTCAT
upper sequence: Vv07s0005g02480.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G00960.1 (Glycine max), 3'ss of exon 1
gtattctttataaacaaactatcctcaatctcacctccttctctgtttgtgtgtgtgtttgac-ccttcaaaattacgttaatgtacaacagcctaagaggattcttcatggtttattttttgcagGTCTGCAAAGGTGTGGGAAGAGCTGCAGATTGAGGTGGATTAACTACTTGAGGCCTGATTTGAAGAGAGGCACATTCTCCCTACAGGAAGAGAATCTTAT
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--------------------gtaattaaattgatccaattatccaactcagcctcctttaatctcctttagcatagagaaaattgttattcatctct-----ttgtgaatggcatgtattg-gcagGTCTGCAAAGGTGTGGTAAGAGCTGCAGGCTTAGGTGGATCAATTATTTAAGGCCTGATTTAAAAAGAGGAACATTCTCACAAGAAGAAGAAAACCTTAT
upper sequence: Vv07s0005g02480.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA03G38410.1 (Glycine max), 3'ss of exon 2
gtattctttataaacaaactatcctcaatctcacctccttctctgtttgtgtgtgtgtttgacccttcaaaattacg-ttaatgtacaacagcctaagaggattct----tcatggtttattttttgcagGTCTGCAAAGGTGTGGGAAGAGCTGCAGATTGAGGTGGATTAACTACTTGAGGCCTGATTTGAAGAGAGGCACATTCTCCCTACAGGAAGAGAATCTTAT
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-------------------------------gtactccaacactgtata-gtctataccaccccatttagcataaaaatcaagggaagaaaactgtagttcattttcccgtcaatgtcctttattggcagGTTTGCAGAGGTGCGGCAAAAGCTGCAGGCTTAGGTGGATCAATTATTTAAGGCCTGATTTGAAGAGAGGTACATTTTCACAAGAGGAGGAAAATCTCAT
upper sequence: Vv07s0005g02480.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S277_14V6.1 (Physcomitrella patens), 3'ss of exon 1
gtattctttataaacaaactatcctcaatctcacctccttctctgtttgtgtgtgtgtttgacccttcaaaattacgttaatgtacaacagcctaagaggattcttcatggtttattttttgcagGTCTGCAAAGGTGTGGGAAGAGCTGCAGATTGAGGTGGATTAACTACTTGAGGCCTGATTTGAAGAGAGGCACATTCTCCCTACAGGAAGAGAATCTTAT
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----------taacatatttaaagtgaaaaaaggttcttttcattgatgtaag-gaatctaatcgtgtggag--aaattgatgaatgtt--cct----ggacaatgaatgctgca------acagGTCTCCAAAGGTGCGGGAAGAGCTGCAGGTTGCGGTGGATCAACTACCTCCGGCCGGATTTGAAACGAGGCGTATTTTCGGCAGCAGAGGAGAACTTGAT
upper sequence: Vv07s0005g02480.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S211_139V6.1 (Physcomitrella patens), 3'ss of exon 1
gtattctttataaacaaactatcctcaatctcacctccttctctgtttgtgtgtgtgtttgacccttcaaaattacgttaatgtacaacagcctaagaggattcttcatggtttatt--ttttgcagGTCTGCAAAGGTGTGGGAAGAGCTGCAGATTGAGGTGGATTAACTACTTGAGGCCTGATTTGAAGAGAGGCACATTCTCCCTACAGGAAGAGAATCTTAT
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--------------------------aatgaaaatggtttcgcaggaatgaagagcgaccaggttagcacactttgttttgtac-taatcactaaccaatatttgtgtttgtgaatggatgcaacagGTCTTCAAAGGTGTGGGAAGAGCTGCAGGCTGCGATGGATCAACTACTTGAGACCAGATTTGAAACGAGGGGTATTCTCCGCGACAGAAGAAAGTTTGATMapped 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|161713802|gb|FC063790.1|FC063790EST: TATTACCAAGTATGGCCATGGCTGCTGGAGCTCTGTCCCAAAGCAAGCAG GTCTGCAAAGGTGTGGGAAGAGCTGCAGATTGAGGTGGATTAACTACTTGA
genomic: TATTACCAAGTATGGCCATGGCTGCTGGAGCTCTGTCCCAAAGCAAGCAGgtattcttta ... ttttttgcagGTCTGCAAAGGTGTGGGAAGAGCTGCAGATTGAGGTGGATTAACTACTTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattacgttaatgtacaacagcctaagaggattcttcatggtttattttttgcagGTCTGCAAAGGTGTGGGAAGAGCTGCAGATTGAGGTGGATTAACTACTTGAGGCCTGATTTGAAGAGAGGCACATTCTCCCTACAGGAAGAGAATCTTAT
cgttaat putative branch site (score: 4)
tttatttttt putative PPT
atggtttatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattctttataaacaaactatcctcaatctcacctccttctctgtttgtgtgtgtgtttgacccttcaaaattacgttaatgtacaacagcctaagaggattcttcatggtttattttttgcagGTCTGCAAAGGTGTGGGAAGAGCTGCAGATTGAGGTGGATTAACTACTTGAGGCCTGATTTGAAGAGAGGCACATTCTCCCTACAGGAAGAGAATCTTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA