Sequence
atgc intronic sequence ATGC exonic sequence...ttcattgttaaattgctactactctaaccacttaagtgtttataggtcgaatggcatcaatgtcatatggcttatttattttgtttctttgcttgtgtagGGATTCCAATCATGTTGAGAGCTCAGACCAGCCACCCTTTGGACCCTTTATCCGCTGCTGAAATCTCAGTGGCAGTGGCAACTGTCAGAGCAGCTGGAGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os02g38010.1 (Oryza sativa), 3'ss of exon 1
---ttcattgttaaattgctactactctaaccacttaagtgtttataggtcgaatggcatcaatgtcatatggcttatttattttgtttctttgcttgtgtagGGATTCCAATCATGTTGAGAGCTCAGACCAGCCACCCTTTGGACCCTTTATCCGCTGCTGAAATCTCAGTGGCAGTGGCAACTGTCAGAGCAGCTGGAGC
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gtgtatttggatagtttaatattttctgttcaatttaagcatcagtacatagctatgct---atatcacaatgacttgacgttatgcgggagaaacatttcagGAATCCGGATCATGACGAGGACACAGAAAAGCCACCCCTTAGACCCACTATCTGCTGCTGAAATTTCTGTGGCTGTAGCAACTGTCAGAGCTTCTGGAAG
upper sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os04g40040.1 (Oryza sativa), 3'ss of exon 2
ttcattgttaaattgctactactctaaccacttaagtgtttataggtcgaatggcatcaatgtcatatggcttatttattttgtttctttgcttgt----gtagGGATTCCAATCATGTTGAGAGCTCAGACCAGCCACCCTTTGGACCCTTTATCCGCTGCTGAAATCTCAGTGGCAGTGGCAACTGTCAGAGCAGCTGGAGC
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-aagttgtttgagtgac-ctgttc--agcatacatgtcttaattgaattatattcattattattacccgtttctaatgttctgctggatggaacaaaatggcagGGATACCTATAATGACCAGAGCCCAGAGAAGCCACCCTTTAGATCCATTATCTGCTGCTGAAATTGCAGTGGCTATAGCAACTGTAAGAGCTGCTGGAAA
upper sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 1
-ttcattgttaaattgctactactctaaccacttaagtgtt-tataggtcgaatggcatcaatgtcatatggcttatttattttgtttctttgcttgtgtagGGATTCCAATCATGTTGAGAGCTCAGACCAGCCACCCTTTGGACCCTTTATCCGCTGCTGAAATCTCAGTGGCAGTGGCAACTGTCAGAGCAGCTGGAGC
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ttaccattttcaacagcctataacctagatagacacatactatttgaaatgtgtaccat--gtgttaactgaactactgtttatcttgagaaaaaaatgcagGGATACCAATAATGACAAGAGCCCAGAGGTGTCACCCTTTGGACCCATTATCTGCTGCTGAAATTGCAGTTGCTGTAGCAACTGTAAGAGTTGCTGGAAG
upper sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G38990.1 (Glycine max), 3'ss of exon 1
ttcattgttaaattgctactactctaacca-cttaagtgtttataggtcg--aatggcatcaatgtcatatggcttatttattttgtttctttgcttgtgtagGGATTCCAATCATGTTGAGAGCTCAGACCAGCCACCCTTTGGACCCTTTATCCGCTGCTGAAATCTCAGTGGCAGTGGCAACTGTCAGAGCAGCTGGAGC
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--cttttctgtttttcttatcgtctgcctagtttatgtgctcatttctcctcaatgaaatttcttatccaaagttgaagaactgttctttttggcata-atagGTATCACTGTCATGGTGAGAGCTCAAACCAGCCACCCTTTGGATCCACTAACTGCTGCTGAAATATCAGTAGCTGTAGCGACCGTTCGAGCAGCTGGGGC
upper sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA18G20800.1 (Glycine max), 3'ss of exon 1
ttcattgttaaattgct-actactctaacc--acttaagtgtttataggtcga--atggcatcaatgtcatatggcttatttattttgtttctttgcttgtgtagGGATTCCAATCATGTTGAGAGCTCAGACCAGCCACCCTTTGGACCCTTTATCCGCTGCTGAAATCTCAGTGGCAGTGGCAACTGTCAGAGCAGCTGGAGC-
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--catatctgtttttcttatcatctttgcctagtttatctgctcatctctcctttatgaaattgcttttccaaagttgaagaactgttctttttggc----ataggTATCACTGTCATGGTGAGAGCTCAAACCAGCCACCCCTTGGATCCACTAACTGCTGCTGAAATATCAGTAGCTGTAGCGACCGTTCGAGCAGCTGGAGCA
upper sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G04360.1 (Glycine max), 3'ss of exon 1
----------ttcattgttaaattgctactactctaaccacttaagtgtttataggtcgaatggcatcaatgtcatatggcttatttattttgtttctttgcttgtgtagGGATTCCAATCATGTTGAGAGCTCAGACCAGCCACCCTTTGGACCCTTTATCCGCTGCTGAAATCTCAGTGGCAGTGGCAACTGTCAGAGCAGCTGGAGC
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ttagtatcctctccctggttagtggttgttgctcc-----cttttgtcttta---atgaaatttcttc--ttctataaaaattatttgttttgcttacttcctggcatagGTATCCCAGTCATGACCAGAGCTCAAACCTGCCACCCTTTGGATCCACTATCAGCTGCTGAAATATCAGTAGCTGTAGCTACAGTTCGAGCTGCTGGGGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtcgaatggcatcaatgtcatatggcttatttattttgtttctttgcttgtgtagGGATTCCAATCATGTTGAGAGCTCAGACCAGCCACCCTTTGGACCCTTTATCCGCTGCTGAAATCTCAGTGGCAGTGGCAACTGTCAGAGCAGCTGGAGC
ttttgtttctttgctt CT-rich tract
ttatttattttgtttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcattgttaaattgctactactctaaccacttaagtgtttataggtcgaatggcatcaatgtcatatggcttatttattttgtttctttgcttgtgtagGGATTCCAATCATGTTGAGAGCTCAGACCAGCCACCCTTTGGACCCTTTATCCGCTGCTGAAATCTCAGTGGCAGTGGCAACTGTCAGAGCAGCTGGAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - ttgctac
- - - - - - - - - - - - - -ccactta
- - - - - - - - - - - - - - - - - - - - - - - - -aatggca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -caatgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatggct