Sequence
atgc intronic sequence ATGC exonic sequencegtgaatttccatacctttctctgtgggtaactttttatggaaaacatttcctaatttattctttcttccttttatcttttttccttttatcttttttccttttttggtggtggggttatctggtttagCTACTATGCAATTGCTACTCCAAGTGCCACACAACGACTTCTTCTAGGACTACTGGAAGCACCACCATCATGGGCTCCAGATGCTCTTGATGCTGCAGTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0157g00020.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os01g08700.3 (Oryza sativa), 3'ss of exon 9
gtgaatttccatacctttctctgtgggtaactttttatggaaaacatttcctaatttattctttcttccttttatcttttttccttttatcttttttccttttttggtggtggggttatctggtttagCTACTATGCAATTGCTACTCCAAGTGCCACACAACGACTTCTTCTAGGACTACTGGAAGCACCACCATCATGGGCTCCAGATGCTCTTGATGCTGCAGTA
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--------------------------------------------------gtaagctcttatga-tcctgtccactgttgtaccatgtgtactttccaaatgattgctaacatgctatttttcgtcagATACTATGCAATTGCTACTCCAAGTGCTACCCAAAGGTTGCTTTTTGGTCTTCTCGAGGCACCACCATCATGGGCCCCAGATGCACTTGATGCAGCAGTA
upper sequence: Vv18s0157g00020.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G107101_T05 (Zea mays), 3'ss of exon 9
gtgaatttccatacctttctctgtgggtaactttttatggaaaacatttcctaatttattctttcttccttttatcttttttccttttatcttttttccttttttggtggtggggttatctggtttagCTACTATGCAATTGCTACTCCAAGTGCCACACAACGACTTCTTCTAGGACTACTGGAAGCACCACCATCATGGGCTCCAGATGCTCTTGATGCTGCAGTA
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-----------------------------------------------------gtaagctccagttcactgctatgcttaatccacttcaagatatt---tttttagtgggatcttttcct--ttcagATACTATGCAATTGCTACACCAAGTGCTACACAGAGGTTGCTTTTTGGTCTTCTGGAAGCACCACCATCATGGGCTCCAGATGCACTTGATGCAGCAGTA
upper sequence: Vv18s0157g00020.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM5G844173_T01 (Zea mays), 3'ss of exon 8
gtgaatttccatacctttctctgtgggtaactttttatggaaaacatttcctaatttattctttcttccttttatcttttttccttttatcttttttccttttttggtggtggggttatctggtttagCTACTATGCAATTGCTACTCCAAGTGCCACACAACGACTTCTTCTAGGACTACTGGAAGCACCACCATCATGGGCTCCAGATGCTCTTGATGCTGCAGTA
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-------------------------------------------gtaatctccagttcactgcta--tgctttcatctacttccagataaaatttta------------aatgggttattttttcccagATATTATGCAATTGCTACACCAAGTGCTACACAGAGGTTGCTTTTTGGTCTTCTCGAAGCACCTCCATCATGGGCTCCAGATGCACTTGATGCAGCAGTA
upper sequence: Vv18s0157g00020.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA20G30980.1 (Glycine max), 3'ss of exon 1
gtgaatttccatacctttctctgtgggtaactttttatggaaaacatttcctaatttattctttcttccttttatcttttttccttttatcttttttccttttttggtg---gtggggttatctggtttagCTACTATGCAATTGCTACTCCAAGTGCCACACAACGACTTCTTCTAGGACTACTGGAAGCACCACCATCATGGGCTCCAGATGCTCTTGATGCTGCAGTA
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------------------------------------------gttattttgaacttaatacctttcttgttttttagttgttcatagagttcatctgcctgacaaaatatatatacacctaacatttgcagATATTATGCAATTGCTACTCCAAGTGCTACACAAAGACTTCTTCTTGGACTTCTTGAAGCACCCCCATCGTGGGCTCCAGATGCACTTGATGCTGCTGTG
upper sequence: Vv18s0157g00020.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA10G36600.1 (Glycine max), 3'ss of exon 8
gtgaatttccatacctttctctgtgggtaactttttatggaaaacatttcctaatttattctttcttccttttatcttttttccttttatcttttttccttttttggtggtggggttatctggtttagCTACTATGCAATTGCTACTCCAAGTGCCACACAACGACTTCTTCTAGGACTACTGGAAGCACCACCATCATGGGCTCCAGATGCTCTTGATGCTGCAGTA
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--------------------------gttattttgaacttaataccttatcttgttttttagttgttcatagagttcatctgcctgagaaaatatat------------atacacctaacctttgcagATATTATGCAATTGCTACTCCAAGTGCTACACAAAGACTTCTTCTTGGACTTCTAGAAGCACCCCCATCATGGGCTCCAGATGCACTTGACGCTGCTGTG
upper sequence: Vv18s0157g00020.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA09G07240.1 (Glycine max), 3'ss of exon 8
gtgaatttccatacctttctctgtgggtaactttttatggaaaacatttcctaatttattctttcttccttttatcttttttccttttatcttttttccttttttggtg-gtggggttatctggtttagCTACTATGCAATTGCTACTCCAAGTGCCACACAACGACTTCTTCTAGGACTACTGGAAGCACCACCATCATGGGCTCCAGATGCTCTTGATGCTGCAGTA
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------------------------------------------gttattctgaactcaatacctttctagttattttgttgttccttcaatgcattggcctgagcaaatttatatatctaaattatctagATATTATGCCATTGCGACTCCTAGTGCAACTCAAAGACTACTTCTTGGACTTTTAGAAGCACCCCCATCATGGGCTCCGGATGCCCTTGATGCTGCTGTG
upper sequence: Vv18s0157g00020.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT1G22770.1 (Arabidopsis thaliana), 3'ss of exon 7
gtgaatttccatacctttctctgtgggtaactttttatggaaaacatttcctaatttattctttcttccttttatcttttttccttttatcttttttccttttttggtggtggggttatctggtttagCTACTATGCAATTGCTACTCCAAGTGCCACACAACGACTTCTTCTAGGACTACTGGAAGCACCACCATCATGGGCTCCAGATGCTCTTGATGCTGCAGTA
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gtattgtttctgggcttaccctttcaattagggtttattggtagtagtctgttgctagttttaaggttgtgcttcctcgaatccctagatcagaattgttttctcactt-tcctgttatactgtc-agATACTATGCCATTGCAACTCCAAGTGCTACGCAGAGACTTCTTCTTGGACTCTTAGAAGCACCACCGTCGTGGGCTCCAGATGCACTTGATGCTGCTGTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcttttttccttttatcttttttccttttttggtggtggggttatctggtttagCTACTATGCAATTGCTACTCCAAGTGCCACACAACGACTTCTTCTAGGACTACTGGAAGCACCACCATCATGGGCTCCAGATGCTCTTGATGCTGCAGTA
ttttatcttttttcct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaatttccatacctttctctgtgggtaactttttatggaaaacatttcctaatttattctttcttccttttatcttttttccttttatcttttttccttttttggtggtggggttatctggtttagCTACTATGCAATTGCTACTCCAAGTGCCACACAACGACTTCTTCTAGGACTACTGGAAGCACCACCATCATGGGCTCCAGATGCTCTTGATGCTGCAGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG