Sequence
atgc intronic sequence ATGC exonic sequence...ctacctgtgctgcaaaatttatatgacatttagagtttccttagttggcacatttttactttcaaagagatttactggttttattggtttaacttaccagCATGGAAGAACAAGTGATCAGTCGTGCCCACCGGATGGGTGCTACTCGGCCTATTCGTGTGGAAACTTTAGCAATGCGTGGTACAATCGAAGAGCAAATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0067g03330.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g72310.1 (Oryza sativa), 3'ss of exon 6
----------------------ctacctgtgctgcaaaatttatatgacatttagagtttccttagttggcacatttttactttcaaagagatttactggttttattggtttaacttaccagCATGGAAGAACAAGTGATCAGTCGTGCCCACCGGATGGGTGCTACTCGGCCTATTCGTGTGGAAACTTTAGCAATGCGTGGTACAATCGAAGAGCAAATG
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gtaatcttactctctaattgctcttcgattgccgaaataact-tgtgacatcatctcgctatcaatgtgtgccattgactcattcacgaatgtgttctatttcccccttttcatttgatcagTATGGAGGAGCAAGTTATTAGTCGTGCACATCGTATGGGTGCTACTCGTCCCATATTTGTTGAGACTTTGGCCATGCGTGGTACCATCGAAGAGCAAATG
upper sequence: Vv13s0067g03330.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA04G28970.1 (Glycine max), 3'ss of exon 8
-ctacctgtgctgcaaaatttatatgacatttagagtttcctt--agttggcacatttttactttcaaagagatttactggttttattggtttaacttaccagCATGGAAGAACAAGTGATCAGTCGTGCCCACCGGATGGGTGCTACTCGGCCTATTCGTGTGGAAACTTTAGCAATGCGTGGTACAATCGAAGAGCAAATG
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aatctcttggtttcccaatttgctggatccttctactttgactgaaattggcatgtttgtccaatttaatt-atcttctaacttgaccaaaat--cttgtcagTATGGAGGAGCAAGTAATTAGTCGTGCTCATCGAATGGGTGCTTCTCGTCCTATTCATGTGGAAACATTAGCAATGCGTGGTACAATTGAAGAGCAAATG
upper sequence: Vv13s0067g03330.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA11G21600.1 (Glycine max), 3'ss of exon 6
-ctacctgtgctgcaaaatttatatgacatttagagttt--ccttagttggcacatttttactttcaaagagatttactggttttattggtttaacttaccagCATGGAAGAACAAGTGATCAGTCGTGCCCACCGGATGGGTGCTACTCGGCCTATTCGTGTGGAAACTTTAGCAATGCGTGGTACAATCGAAGAGCAAATG
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tatctcttggtttcccaatttgctggatccttctacttcaaccgaaattggcatgtttatccagtttaatt-attttctaacttgaccaaaatgtttt--cagTATGGAGGAGCAAGTAATTAGTCGTGCTCATCGTATGGGTGCTTCTCGTCCTATTTATGTGGAAACATTAGCAATGCGTGGTACAATTGAAGAGCAAATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggcacatttttactttcaaagagatttactggttttattggtttaacttaccagCATGGAAGAACAAGTGATCAGTCGTGCCCACCGGATGGGTGCTACTCGGCCTATTCGTGTGGAAACTTTAGCAATGCGTGGTACAATCGAAGAGCAAATG
gtttaac putative branch site (score: 3)
atttttactttcaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctacctgtgctgcaaaatttatatgacatttagagtttccttagttggcacatttttactttcaaagagatttactggttttattggtttaacttaccagCATGGAAGAACAAGTGATCAGTCGTGCCCACCGGATGGGTGCTACTCGGCCTATTCGTGTGGAAACTTTAGCAATGCGTGGTACAATCGAAGAGCAAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
-tacctgt
- - - - -ctgcaaa
- - - - - - - - - - - - - - - - - - - - -tagttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaagaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttactgg