Sequence
atgc intronic sequence ATGC exonic sequencegtagttgaaaccttgaatgaggcacactgcagatttgttttggtttattttctatgatattttattttaagattttccatgattcctggaatttttttcatgcacctttcatcacgtcagGTGTTGCAGCATCTTGGTGATTTTCCTCAGAAATTGTCACAGCATTGTCATTCATTATATGATTATGCTCCAATGCCACCGGTAACATATCCAGAGCTAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os10g42439.1 (Oryza sativa), 3'ss of exon 10
gtagttgaaaccttgaatgaggcacactgcagatttgttttggtttattttctatgatattttattttaagattttccatgattcctggaatttttttcatgcacctttcatcacgtcagGTGTTGCAGCATCTTGGTGATTTTCCTCAGAAATTGTCACAGCATTGTCATTCATTATATGATTATGCTCCAATGCCACCGGTAACATATCCAGAGCTAA
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--------------gtatttaccaccctagttatttgttaaaat--gtttactttgagatcatgagtt----tttaatctaattttcaaattgttctgtccatacgactggctttctcagGTCCTGCAGCATCTCGGTGACTTTCCTCAGAAATTGGCTCAACATTGTCATTCATTGTATGATTATGCTCCTATGCCACCTGTGACCTACCCGAATCTGA
upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G049288_T01 (Zea mays), 3'ss of exon 10
gtagttgaaaccttgaatgaggcacactgcagatttgttttggtttattttctatgatattttattttaagattttccatgattcctggaatttttttcatgcacctttcatcacgtcagGTGTTGCAGCATCTTGGTGATTTTCCTCAGAAATTGTCACAGCATTGTCATTCATTATATGATTATGCTCCAATGCCACCGGTAACATATCCAGAGCTAA
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--------gtcttttatctatgtacttt----atttttatttgtaaaaaacatttgctctcttgttttgagatttta-atctcattttaaattactttgttcaacttattttt--ggcagGTTCTGCAGCATCTCGGTGAATTTCCTCAGAAATTGGCACAGCATTGCCATTCATTGTATGATTATGCTCCTATGCCACCTGTGACTTACCCGAATCTGA
upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G001895_T01 (Zea mays), 3'ss of exon 4
gtagttgaaaccttgaatgaggcacactgcagatttgttttggtttattttctatgatattttattttaagattttccatgattcctggaatttttttcatgcacctttcatcacgtcagGTGTTGCAGCATCTTGGTGATTTTCCTCAGAAATTGTCACAGCATTGTCATTCATTATATGATTATGCTCCAATGCCACCGGTAACATATCCAGAGCTAA
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------------gtctgttatctatatcctttatttttatttgtaaaaacatt-tgctctctagttttgatattta--aatatcattttaaattatttggttcaacttttttt-tggcagGTCCTGCAGCATCTCGGTGACTTTCCTCAGAAATTAGCACAGCATTGCCATTCGTTGTATGATTATGCTCCTATGCCACCCGTGACTTATCCGAATCTGA
upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA05G08040.1 (Glycine max), 3'ss of exon 10
gtagttgaaaccttgaatgaggcacactgc--agatttgttttggtttattttctatgatattttatt---ttaagattttccatgattcc-------tggaatttttttcatgcaccttt-catcacgtcagGTGTTGCAGCATCTTGGTGATTTTCCTCAGAAATTGTCACAGCATTGTCATTCATTATATGATTATGCTCCAATGCCACCGGTAACATATCCAGAGCTAA
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gtaatctaaacattgtgatagtcactttgatgagtcttatttttcctcaatttttataatagtatattcacttggtttctaatatgatattcacatagtggaattgaatccattctcctttgctctttatcagGTTTTGCAGCATCTTGGTGATTTTCCGCAGAAACTGTCACAGCATTGCCATGTTTTATATGACTATGCCCCCATGCCTCCAGTGACATACCCAGAGCTGA
upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA17G12950.1 (Glycine max), 3'ss of exon 10
gtagttgaaaccttgaatgaggcacactgc--agatttgttttggtttattttctatgatattttattttaagattttcc---atgattcctgga-------atttttttcatgcaccttt-catcacgtcagGTGTTGCAGCATCTTGGTGATTTTCCTCAGAAATTGTCACAGCATTGTCATTCATTATATGATTATGCTCCAATGCCACCGGTAACATATCCAGAGCTAA
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------gtaatctaaacttagccaccctgatgagttttatttttcctcaatttttataatattacattcactgggttactaatatgatatttacatagtataattgaatccattctccttcgctttttatcagGTTTTGCAGCATCTTGGTGATTTTCCGCAGAAACTGTCACAGCATTGCCATGTTTTATATGACTACGCCCCCATGCCTCCAGTGACATACCCAGAGCTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttaagattttccatgattcctggaatttttttcatgcacctttcatcacgtcagGTGTTGCAGCATCTTGGTGATTTTCCTCAGAAATTGTCACAGCATTGTCATTCATTATATGATTATGCTCCAATGCCACCGGTAACATATCCAGAGCTAA
cctttcatc CT-rich tract
aatttttttcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagttgaaaccttgaatgaggcacactgcagatttgttttggtttattttctatgatattttattttaagattttccatgattcctggaatttttttcatgcacctttcatcacgtcagGTGTTGCAGCATCTTGGTGATTTTCCTCAGAAATTGTCACAGCATTGTCATTCATTATATGATTATGCTCCAATGCCACCGGTAACATATCCAGAGCTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT