Sequence
atgc intronic sequence ATGC exonic sequencegtctgtccagactgaaacttctgtggcgattctactacttaaaaatagattgcttattgcaaagttaatgtttcctctaagcttggtttcgggatttttctttttccccagATGGGTGGAAGAAATACTGTGCTTTTAGATGCTTTGAGTTCAGGAATTCCTTTGGTTAGTGACATTCCAACAATCATATTTGGAGCCGATGTAACTCATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g04620.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AC189879.3_FGT003 (Zea mays), 3'ss of exon 12
gtctgtccagactgaaacttctgtggcgattctactac--ttaaaaatagattgcttattgcaaagttaatgtttcctctaagcttggtttcgggatttttctttttccccagATGGGTGGAAGAAATACTGTGCTTTTAGATGCTTTGAGTTCAGGAATTCCTTTGGTTAGTGACATTCCAACAATCATATTTGGAGCCGATGTAACTCATC
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----gtacttacc---accttggttatacatcaaatacagttcagaacagcaactttataagaga---aatggctc----gatattgactaatgataccatcaaattc---agATGGGAGGAAGAAACACTGTGCTCCTGGACGCAATAAGTTGGAGCATTCCTTTGGTCAGTGACATCCCAACTATTATATTTGGTGCAGATGTAACACACC
upper sequence: Vv11s0016g04620.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA04G21450.1 (Glycine max), 3'ss of exon 14
-------------------------gtctgtccagactgaaacttctgtggcgattctactacttaaaaatagattgctta---ttgcaaagttaatgtttcctctaagcttggtttcgggatttt----------tctttttccccagATGGGTGGAAGAAATACTGTGCTTTTAGATGCTTTGAGTTCAGGAATTCCTTTGGTTAGTGACATTCCAACAATCATATTTGGAGCCGATGTAACTCATC
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gtctgttattattaaatactcaaccatactttacgatccaaagtgacacggtggctgcatgctacactaatattttacttcagtctcttaactcgttcttttatctgttattattttcatttgcttagataaaggatttattcatgtagATGGGAGGAAGAAACACAGTACTTTTGGATGCTTTAAGTTGGAGGATTCCACTTGTTAGTGATATTCCAACAATAATATTTGGAGCCGATGTAACTCATC
upper sequence: Vv11s0016g04620.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA06G23920.1 (Glycine max), 3'ss of exon 13
--------------------------------------------------gtctgtccagactgaaacttctgtggcgattctactacttaaaaatagattgcttattgcaaagttaatgtttcctctaagcttggtttcgggatttttctttttccccagATGGGTGGAAGAAATACTGTGCTTTTAGATGCTTTGAGTTCAGGAATTCCTTTGGTTAGTGACATTCCAACAATCATATTTGGAGCCGATGTAACTCATC
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gtctgttattatcaaatgctcaatcgtattttactatccaaagtgacagggtggctacatgct-acactgaaatattgttttcattctcttaactcattcttttatttgtaa--ttattattttcatttcatttgcttaaataaaggatttattcttgtagATGGGAGGAAGAAACACAGTACTTTTGGATGCTTTAAGTTGGAGGATTCCACTGGTTAGTGATATTCCAACAATAATATTTGGAGCTGATGTAACTCATC
upper sequence: Vv11s0016g04620.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA05G08170.1 (Glycine max), 3'ss of exon 12
-------------------------------gtctgtccagactgaaacttct--gtggcgattctactacttaaaaat--agattgcttattgcaaagttaatgtttcctctaagcttggttt---cgggatttttctt-----tttccccagATGGGTGGAAGAAATACTGTGCTTTTAGATGCTTTGAGTTCAGGAATTCCTTTGGTTAGTGACATTCCAACAATCATATTTGGAGCCGATGTAACTCATC
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gtctgttattaactatttacaaaatttaaatgatcattcaaaattacaatccaaagtaagagaatggttacttgctactcaggaatattcatttctatattttctcccaccttttttttatttttcccttaattttccttaaatatacttttagATGGGAGGAAGGAACACAGTACTTTTGGATGCGCTAAGTTGGAGAATCCCATTGGTTAGTGACATTCCAACAATAATTTTTGGAGCAGATGTAACTCATC
upper sequence: Vv11s0016g04620.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA17G12850.1 (Glycine max), 3'ss of exon 13
--------------------------------gtctgtccagactg------aaacttctgtggcgatt--ctactacttaaaaata--gattgct---tatt--gcaaagttaatgtttcctctaagcttggtttcgggatttttc----tttttccccagATGGGTGGAAGAAATACTGTGCTTTTAGATGCTTTGAGTTCAGGAATTCCTTTGGTTAGTGACATTCCAACAATCATATTTGGAGCCGATGTAACTCATC
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gtctgttattatcttataataaaatttaaattatctatcaaaattacattccaaagtaagagagtggttacctgctactcaggaatattcatttctacatattcgccggccttaatttattttttcatttttcacttaatatttccttaaatatacttttagATGGGAGGAAGGAACACAGTACTTTTGGATGCCCTAAGTTGGAGGATCCCATTGGTTAGTGACATTCCAACAATAATTTTTGGAGCAGATGTAACACATCMapped 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|349828457|gb|FQ417199.1|FQ417199EST: AGATTAGCAACCAGTACCTGGCAAACGTGTCACTTAAAATCAATGTTAAG ATGGGTGGAAGAAATACTGTGCTTTTAGATGCTTTGAGTTCAGGAATTCCT
genomic: AGATTAGCAACCAGTACCTGGCAAACGTGTCACTTAAAATCAATGTTAAGgtctgtccag ... ttttccccagATGGGTGGAAGAAATACTGTGCTTTTAGATGCTTTGAGTTCAGGAATTCCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgcaaagttaatgtttcctctaagcttggtttcgggatttttctttttccccagATGGGTGGAAGAAATACTGTGCTTTTAGATGCTTTGAGTTCAGGAATTCCTTTGGTTAGTGACATTCCAACAATCATATTTGGAGCCGATGTAACTCATC
agttaat putative branch site (score: 4)
tttttctttttcccc putative PPT
atttttcttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctgtccagactgaaacttctgtggcgattctactacttaaaaatagattgcttattgcaaagttaatgtttcctctaagcttggtttcgggatttttctttttccccagATGGGTGGAAGAAATACTGTGCTTTTAGATGCTTTGAGTTCAGGAATTCCTTTGGTTAGTGACATTCCAACAATCATATTTGGAGCCGATGTAACTCATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG