Sequence
atgc intronic sequence ATGC exonic sequence...ttcttttgcatatggaaaacaaattttgacttccaatgagtgcttattacatgatttaggtcttgctttaagctaatgctgggcctttttttctttccagATTCAAAAAGATATAAGGCTGTTATCATTCGCATTGACAGCCCTGGAGGTGATGCTCTTGCTTCTGATTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g04690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g49570.1 (Oryza sativa), 3'ss of exon 7
ttcttttgcatatggaaa----acaaattttgacttccaatgagtgcttattaca-tgatttaggtcttgctttaagctaatgctgggcctttttttctttccagATTCAAAAAGATATAAGGCTGTTATCATTCGCATTGACAGCCCTGGAGGTGATGCTCTTGCTTCTGATTT
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ttatttagcatgtgtatatagtgcaaattt---ctgttagttcacccatttaacagtgaattcta-cttgctatttg-taacgaagagttccttatccttgccagAGTCAGAAAAGTATAAAGCTGTTATCCTCCGTATAGACAGCCCTGGTGGTGATGCTCTTGCTTCTGATCT
upper sequence: Vv17s0000g04690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G122843_T02 (Zea mays), 3'ss of exon 12
ttcttttgcatatggaaaacaaattttgacttccaatgagtgcttattacatgatttaggtcttgctttaag-ctaatgctgg-gcctttttttctttccagATTCAAAAAGATATAAGGCTGTTATCATTCGCATTGACAGCCCTGGAGGTGATGCTCTTGCTTCTGATTT
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--ttcttatagtttatatgagcatatacatattgtgcaaactcatgttatttcaactgacaattccatcacttctaattatgaagcttcttgctatttgcagAATCAGAAAAGTACAAAGCTGTTATCCTACGTATAGACAGCCCTGGTGGTGATGCTCTTGCTTCTGATCT
upper sequence: Vv17s0000g04690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G31180.1 (Glycine max), 3'ss of exon 7
ttcttttgcatatggaaaacaaattttgacttccaatgagtgcttattacatgatt--taggtcttgctttaagctaatgctgggcctttttttctttccagATTCAAAAAGATATAAGGCTGTTATCATTCGCATTGACAGCCCTGGAGGTGATGCTCTTGCTTCTGATTT
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-tttagtgtccatcaattatgctgtttgccaaaaaaatgcaacctttgacagtgttattattcattattttaattccctcatcagtgttctttcccctc-agAATCAAAAAAATTTAAGGCTGCTATCATCAGAATTGACAGTCCTGGAGGTGATGCTCTTGCTTCTGATTT
upper sequence: Vv17s0000g04690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G22870.1 (Glycine max), 3'ss of exon 8
ttcttttgcatatggaaaacaaattttg----acttccaatgagtgcttattacatgatttag-gtcttgctttaagc-taatgctgggcctttttttctttccagATTCAAAAAGATATAAGGCTGTTATCATTCGCATTGACAGCCCTGGAGGTGATGCTCTTGCTTCTGATTT
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------tgcctatcaatgatgttgtttgcctaaatcgcaacctttgacagtgtcattattcattattttaattcactcacgactcacaagtgttctttcccctcagAGTCAAAAGAATTCAAGGCTGCTATCATCAGAATTGACAGTCCTGGAGGTGATGCTCTTGCTTCTGATTT
upper sequence: Vv17s0000g04690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G09020.1 (Glycine max), 3'ss of exon 7
ttcttttgcatatggaaaacaa-attttgacttccaatgagtgcttattacatgatttaggtcttgcttt--aagctaatgctgggcctt-tttttctttccagATTCAAAAAGATATAAGGCTGTTATCATTCGCATTGACAGCCCTGGAGGTGATGCTCTTGCTTCTGATTT
|| | | | | || ||| || || || || |||||| || || ||| | ||| || | | || ||||| ||||||| |||| ||||| | ||| ||||||| ||| || || |||||||| || ||||| ||||||||||||||||||||
-cctgaaactttttggcaatgttattatgctttattatttttggttattatat---ttgtgtcataattttggaggtcacattgagccttctttttctcctcagAGTCAAATAAATACAAGGCTGCTATTATCCGAATTGACAGTCCAGGAGGGGATGCTCTTGCTTCTGATTT
upper sequence: Vv17s0000g04690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G07540.1 (Glycine max), 3'ss of exon 8
ttcttttgcatatggaaaacaaattttgacttccaatgagtgcttattacatgatttaggtcttgcttt--aagctaatgctgggcctt-tttttctttccagATTCAAAAAGATATAAGGCTGTTATCATTCGCATTGACAGCCCTGGAGGTGATGCTCTTGCTTCTGATTT----
||| |||| ||| | ||| || | | || ||||| ||||||| |||| ||||| | ||| | ||||| ||| || | |||||||| || ||||| ||||||||||||||||||||
---------------------------------------------gttattatatttgtgtcataattttggaggtcacattgagccttctttttctcctcagAGTCAAATAAATACAGGGCTGCTATTATCTGAATTGACAGTCCAGGAGGGGATGCTCTTGCTTCTGATTTGCAA
upper sequence: Vv17s0000g04690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G73990.1 (Arabidopsis thaliana), 3'ss of exon 7
ttcttttgcatatggaaaacaaattttgacttccaatgagtgcttattacatgatttaggtcttgctttaagctaatgctgggcctttttttctttccagATTCAAAAAGATATAAGGCTGTTATCATTCGCATTGACAGCCCTGGAGGTGATGCTCTTGCTTCTGATTT
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-----gtaggtctgtttattacgttttcatctacta-gtgtgct-gttgtgttcgtcaatagcagctcagaact----ttatttcctctttcttttgaagAGTCCAAAAAATATAAGGCTGCCATCATCCGAATTGACAGTCCAGGAGGTGATGCTCTCGCTTCTGATTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attacatgatttaggtcttgctttaagctaatgctgggcctttttttctttccagATTCAAAAAGATATAAGGCTGTTATCATTCGCATTGACAGCCCTGGAGGTGATGCTCTTGCTTCTGATTT
agctaat putative branch site (score: 3)
cctttttttctttcc putative PPT
tttttttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcttttgcatatggaaaacaaattttgacttccaatgagtgcttattacatgatttaggtcttgctttaagctaatgctgggcctttttttctttccagATTCAAAAAGATATAAGGCTGTTATCATTCGCATTGACAGCCCTGGAGGTGATGCTCTTGCTTCTGATTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - -gcatatg
- - - - - - - - aaacaaa
- - - - - - - - - - - - - - -cttccaa
- - - - - - - - - - - - - - - - - - tgagtgc
- - - - - - - - - - - - - - - - - - - - - - - - -catgatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctaatgc
