Sequence
atgc intronic sequence ATGC exonic sequence...gaataagattggattattttccccattttgttggttcactggaattatgattgtgtatacttcacttttcctgattgcagtaagtcaattctttttacagGTCGATCTGCTTAGGGGTCAGAAAACAGATAAAGTGGATGTCACTCTACAACCTGAAGAGCTTGAAGTTCTGGAAAATGTTGTGGCTGCAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0818g00010.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os02g58090.1 (Oryza sativa), 3'ss of exon 15
gaataagattggattattttccccattttgttggttcactggaatta-tgattgtgtatacttcacttttcctgattgcagtaagtcaattctttttacagGTCGATCTGCTTAGGGGTCAGAAAACAGATAAAGTGGATGTCACTCTACAACCTGAAGAGCTTGAAGTTCTGGAAAATGTTGTGGCTGCAAA
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--gtaggcttc-atagtcctttgcactatgtttaca-agtggtttcactgaatgcgtgc-tttaatgatttttggttgtgg---acca-------ctgcagGTGGATCTTCTCAAGAATCAGAAGTCTGATAAGGTGGATGTCACCATACAACCTGAGGAGCTTGAAGTTATGGATGATGTTTTGGCTGCCAA
upper sequence: Vv00s0818g00010.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA13G31550.1 (Glycine max), 3'ss of exon 15
gaataagattggattattttccccattttgttggttcactggaattatgattgtgtatacttcacttttcctgattgcagtaagtcaattctttttacagGTCGATCTGCTTAGGGGTCAGAAAACAGATAAAGTGGATGTCACTCTACAACCTGAAGAGCTTGAAGTTCTGGAAAATGTTGTGGCTGCAAA
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-------gtaagagttttttatgcggttggttatgatgatgatatttgttttgttttgaagagtagcatgtttcatgcattctggctttggcattttcagGTTGATCTGCTTAGAGGTCAGAAGACAGATAAAGTAGATGTCACTTTACAGCCTGAAGAGTTGGAAGCCATGGAAAATGTTTTGCCCGCGAA
upper sequence: Vv00s0818g00010.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA13G31550.2 (Glycine max), 3'ss of exon 15
gaataagattggattattttccccattttgttggttcactggaattatgattgtgtatacttcacttttcctgattgcagtaagtcaattctttttacagGTCGATCTGCTTAGGGGTCAGAAAACAGATAAAGTGGATGTCACTCTACAACCTGAAGAGCTTGAAGTTCTGGAAAATGTTGTGGCTGCAAA--------
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-------gtaagagttttttatgcggttggttatgatgatgatatttgttttgttttgaagagtagcatgtttcatgcattctggctttggcattttcagGTTGATCTGCTTAGAGGTCAGAAGACAGATAAAGTAGATGTCACTTTACAGCCTGAAGAGTTGGAAGCCATGGAAAATGTTTTGCCCGCGAAGTATGAAT
upper sequence: Vv00s0818g00010.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA15G07760.1 (Glycine max), 3'ss of exon 15
gaataagattggattattttccccattttgttggttcactggaattatgattgtgtatacttcacttttcctgattgcagtaagtcaattctttttacagGTCGATCTGCTTAGGGGTCAGAAAACAGATAAAGTGGATGTCACTCTACAACCTGAAGAGCTTGAAGTTCTGGAAAATGTTGTGGCTGCAAA
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--gtaaga----attttttatgcggttgtttatgatgatgatatttgttttgttttgaagagtagcatgtttcat-gcattctggctttggcactttcagGTTGATTTGCTTAGAGGTCAGAAGACAGATAAAGTGGATGTCACTTTACAGCCTGAAGAGTTGGAAGCCATGGAAAATGTTTTGCCTGCCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgattgtgtatacttcacttttcctgattgcagtaagtcaattctttttacagGTCGATCTGCTTAGGGGTCAGAAAACAGATAAAGTGGATGTCACTCTACAACCTGAAGAGCTTGAAGTTCTGGAAAATGTTGTGGCTGCAAA
tcctgat putative branch site (score: 3)
ttctttttac putative PPT
aattcttttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaataagattggattattttccccattttgttggttcactggaattatgattgtgtatacttcacttttcctgattgcagtaagtcaattctttttacagGTCGATCTGCTTAGGGGTCAGAAAACAGATAAAGTGGATGTCACTCTACAACCTGAAGAGCTTGAAGTTCTGGAAAATGTTGTGGCTGCAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
-aataaga
- - - - - - - - -tttcccc
- - - - - - - - - - - - - - tgttggt
- - - - - - - - - - - - - - - - - - cactgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcagta