Sequence
atgc intronic sequence ATGC exonic sequencegtaatgtctaatacaaatgtccatcagttctctggctatttctctacatgtggatccattgtaattcagtggtatgatttctttgctttttgcagACTCCTCTCCATTGCAGAGGAGACTTTGGCAGAGTTCCTCTCAAAGGCTACAGGAACTGCTGTCGATTGGGTCCAGATGCCTGGGATGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os03g01890.2 (Oryza sativa), 3'ss of exon 4
gtaa-tgtctaatacaaatgtccatcagttctctggctatttc-tctacatgtggatccattgtaattcagtggta-tgatttctttgctttttgcagACTCCTCTCCATTGCAGAGGAGACTTTGGCAGAGTTCCTCTCAAAGGCTACAGGAACTGCTGTCGATTGGGTCCAGATGCCTGGGATGAAG
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gtaagtaaatagttctgagtgactcaggtagaattattgttggatggacttgctctttcgatatcatgctatcttaactgccttttatcttgttctagGCTCCTTTCAATTGCAGAGGAGACCTTGACAGAGTTCCTCTCAAAGGCTACTGGTACAGCTATTGATTGGGTCCAGATGCCTGGGATGAAG
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os10g33960.2 (Oryza sativa), 3'ss of exon 3
----gtaatgtctaatacaaatgtcc----atcagttctctggctat-----ttctctacatgtggatccattgtaattcagtggtatgatttctttgctttttg--cagACTCCTCTCCATTGCAGAGGAGACTTTGGCAGAGTTCCTCTCAAAGGCTACAGGAACTGCTGTCGATTGGGTCCAGATGCCTGGGATGAAG
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gttagtgaaatttcctttgaatgttttggttttgggcaattggaagcggctgccctctagggattggtttgccattttcttgataaactagttatatgatttttgtccagACTCCTTACAATTGCGGAGGAGACCCTGACAGAGTTCCTCTCCAAGGCTACAGGGACTGCTGTTGATTGGGTGCCAATGCCTGGGATGAAG
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G469551_T02 (Zea mays), 3'ss of exon 4
----gtaatgtctaatacaaa---tgtccatcagttctctggct---atttctctacatgtggatccattgtaattcagtggtatga---tttctttgctttttg--cagACTCCTCTCCATTGCAGAGGAGACTTTGGCAGAGTTCCTCTCAAAGGCTACAGGAACTGCTGTCGATTGGGTCCAGATGCCTGGGATGAAG
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gtaagtaaactgtaaaccagagcttgctgtgaaactctctcacttcaatagtgtttaataagaacgtactgttgatacatgatactaaaccttttccacttttgggccagGCTCCTTGCAATTGCAGAGGAGACCTTGACAGAGTTCCTCTCAAAGGCTACAGGGACTGCTATTGATTGGGTCCAGATGCCTGGGATGAAG
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G109987_T01 (Zea mays), 3'ss of exon 4
----gtaatgtctaatacaaatgtccatcagttctctggctattt---ctctacatgt-ggatccattgtaattcagtggtatgatttctttgctttttgcagACTCCTCTCCATTGCAGAGGAGACTTTGGCAGAGTTCCTCTCAAAGGCTACAGGAACTGCTGTCGATTGGGTCCAGATGCCTGGGATGAAG
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gtaagtgaatcattctggccatctggagaaggattcttgttgcgtaaccttgccatttcaagactatcctaatc--ataataccattccaattcttgtttcagACTCCTTGCGATTGCAGAGGAGACCTTCACAGAGTTCCTCTCAAAGGCTACTGGGACAGCTATTGATTGGGTCCAGATGCCTGGGATGAAG
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G042250_T03 (Zea mays), 3'ss of exon 4
------gtaatgtctaatacaaatgtccatcagttctctggctatttctctacatgtggatccattgtaattcagtggtatgatttctttgctttttgcagACTCCTCTCCATTGCAGAGGAGACTTTGGCAGAGTTCCTCTCAAAGGCTACAGGAACTGCTGTCGATTGGGTCCAGATGCCTGGGATGAAG
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gtaagtgaatcgttctggccatctggagaaggatttttgttgcgtaaccttgccattgagactgtcctaatc--atagtgccatttcaaatcttgtttcagACTCCTTGCGATTGCGGAGGAGACCTTCACAGAGTTCCTCTCAAAGGCTACTGGGACAGCTATTGATTGGGTCCAGATGCCTGGGATGAAG
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G20520.1 (Glycine max), 3'ss of exon 3
gtaatgtctaatacaaatgtccatcagttctctggctatttctctacatgtggatccattgtaattcagt-ggtatgatttctttgctttttgcagACTCCTCTCCATTGCAGAGGAGACTTTGGCAGAGTTCCTCTCAAAGGCTACAGGAACTGCTGTCGATTGGGTCCAGATGCCTGGGATGAAG
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-------gtaattctgaacttcatgaagtga--agttgcttcttt---tgtggtgaagttttgctcaaattggtttttctgttgtgatccttgcagACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAG
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G08080.1 (Glycine max), 3'ss of exon 3
gtaatgtctaatacaaatgtccatcagttctctggctatttctctacatgtggatccattgtaattcagtggtatgatttctttgctttttgcagACTCCTCTCCATTGCAGAGGAGACTTTGGCAGAGTTCCTCTCAAAGGCTACAGGAACTGCTGTCGATTGGGTCCAGATGCCTGGGATGAAG
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------gtaaatctgagcttcatgaagtggagttgcttcttttgtg-gtgaagttttactcaaatttgtttttctg----ttgcgatccttgcagACTCCTATCAATTGCAGAGGAAACTTTGACAGAGTTCCTTTCAAAGGCTACAGGAACTGCTGTAGATTGGGTCCAGATGCCTGGGATGAAG
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G60690.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaatgtctaatacaaatgtccatcagttctctggctatttctctacatgtggatccattgtaattcagtggtatgatttctttgcttt--ttgcagACTCCTCTCCATTGCAGAGGAGACTTTGGCAGAGTTCCTCTCAAAGGCTACAGGAACTGCTGTCGATTGGGTCCAGATGCCTGGGATGAAG
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------------gtaaagtttcatt-----tttggttttgaagtaacctttt--tctaatcttttttctttgcctaattgcttggttttggtcttagATTGCTCTCAATCGCAGAGGAGACTTTGGCAGAGTTCCTATCCAAGGCTACAGGAACTGCTGTTGATTGGGTTCAGATGCCTGGGATGAAG
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ26528 (Selaginella moellendorffii), 3'ss of exon 3
gtaatgtctaatacaaatgtccatcagttctctggctatttctctacatgtggatccattgtaattcagtggtatgatttctttgctttttgcagACTCCTCTCCATTGCAGAGGAGACTTTGGCAGAGTTCCTCTCAAAGGCTACAGGAACTGCTGTCGATTGGGTCCAGATGCCTGGGATGAAG
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-------------------------------------gtgagaatacttggaaaaagctggtcgtttatctcaaggtgttttgtctcgtttgcagACTGTTGAGCATTGCAGAGGAGACTTTGAACTCATTTCTTGCAAAGGCAACAGGAACTGCGGTGGACTGGATCCAGATTCCTGGGATGAAG
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ14784 (Selaginella moellendorffii), 3'ss of exon 3
gtaatgtctaatacaaatgtccatcagttctctggctatttctctacatgtggatccattgtaattcagtggtatgatttctttgctttttgcagACTCCTCTCCATTGCAGAGGAGACTTTGGCAGAGTTCCTCTCAAAGGCTACAGGAACTGCTGTCGATTGGGTCCAGATGCCTGGGATGAAG------
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-------------------------------------gtgagaatacttggaaaaagctggtcgtttatctcgaggtgttttgtctggtttgcagACTGTTGAGCATTGCAGAGGAGACTTTGAACTCATTTCTTGCAAAGGCAACAGGAACTGCGGTGGACTGGATCCAGATTCCTGGGATGAAGGCATGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctctacatgtggatccattgtaattcagtggtatgatttctttgctttttgcagACTCCTCTCCATTGCAGAGGAGACTTTGGCAGAGTTCCTCTCAAAGGCTACAGGAACTGCTGTCGATTGGGTCCAGATGCCTGGGATGAAG
tttctttgctttttgc CT-rich tract
attgtaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgtctaatacaaatgtccatcagttctctggctatttctctacatgtggatccattgtaattcagtggtatgatttctttgctttttgcagACTCCTCTCCATTGCAGAGGAGACTTTGGCAGAGTTCCTCTCAAAGGCTACAGGAACTGCTGTCGATTGGGTCCAGATGCCTGGGATGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG