Sequence
atgc intronic sequence ATGC exonic sequence...cactagatttttagcttctattttcattgtaaatgtttgtccatacatcttatacttcttccgtgtgcatacacacatataatttttattattgtttcagGTTGGTAACCGCTCAAGTGAGTTCCATCCAGAGGTTAGAAGAGTGAGGCGTGAAGGCTCTTATATATATGAGGAATTTATGCCAACTGGAGGAACAGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os03g48300.1 (Oryza sativa), 3'ss of exon 7
cactagatttttagcttctattttcattgtaaatgtttgtccatacatcttatacttcttccgtgtgcatacacacatataatttttattattgtttc----------agGTTGGTAACCGCTCAAGTGAGTTCCATCCAGAGGTTAGAAGAGTGAGGCGTGAAGGCTCTTATATATATGAGGAATTTATGCCAACTGGAGGAACAGATG
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-----gaaaccaaacaacattttctgttcttcatgtattcttatgtatttt-----tcttgtatctggatacaaaaataaactttttgttatatttctgattaaatgtagGTTGGTAACCGATCTAGTGAATTTCATCCTGATGTCAGGAGAGTGAGGCGTGAAGGATCTTACATTTACGAGGAGTTCATGCCTACTGGTGGGACGGATG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA09G37610.1 (Glycine max), 3'ss of exon 5
cactagatttttagcttctattttcattgtaaatgtttgtccatacatcttat-acttcttccgtgtgcatacacacatataatttt--tattatt--gtttcagGTTGGTAACCGCTCAAGTGAGTTCCATCCAGAGGTTAGAAGAGTGAGGCGTGAAGGCTCTTATATATATGAGGAATTTATGCCAACTGGAGGAACAGATG
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-----acttctgggatagtacgttgatgttatcaatttttttccgaatcttatgactaaatataattaagcaacttggtctgctttgggtattttttgatcttagGTTGGCAACAGGTCTAGTGAGTTCCATCCAGAGGTGAGAAGAGTGAGGCGTGAAGGGTCCTATATTTACGAGGAGTTCATGCCAACTGGAGGGACAGATG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA18G49000.1 (Glycine max), 3'ss of exon 7
cactagatttttagcttctattttcattgtaaatgtttgtccatacatcttat-acttcttccgtgtgcatacacacatataatttt----tattattgtttcagGTTGGTAACCGCTCAAGTGAGTTCCATCCAGAGGTTAGAAGAGTGAGGCGTGAAGGCTCTTATATATATGAGGAATTTATGCCAACTGGAGGAACAGATG
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----gaacttctgggata-gttgatgttattattttttttccccgagtcttatgactaaatataattaagcatcttggtctgctttgggtattttatgatcttagGTTGGCAACAGGTCTAGTGAGTTCCATCCAGAGGTGAGAAGAGTGAGGCGTGAAGGGTCATATATTTACGAGGAGTTCATGCCAACTGGAGGGACAGATG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA13G05060.1 (Glycine max), 3'ss of exon 7
cactagatttttagcttctattttcattgtaaatgtttgtccatacatcttatacttcttccgtgtgcatacacacatataatttttatt--attgtttcagGTTGGTAACCGCTCAAGTGAGTTCCATCCAGAGGTTAGAAGAGTGAGGCGTGAAGGCTCTTATATATATGAGGAATTTATGCCAACTGGAGGAACAGATG
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-atttctggtttcccttccactcttttattagttatattactgatagtctgatgtataattaatcaacttg-gtatctgttttgggtattaaattatcttagGTTGGCAATAGGTCCAGTGAATTTCACCCAGAAGTGAGAAGAGTGAGGCGTGAAGGATCCTATATTTATGAGGAATTTATGCCAACTGGAGGGACAGATG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 5
-cactagatttttagcttctattttcattg--taaatgtttgtccatacatcttatacttcttccgtgtgcatacacacatataatttttattattgtttcagGTTGGTAACCGCTCAAGTGAGTTCCATCCAGAGGTTAGAAGAGTGAGGCGTGAAGGCTCTTATATATATGAGGAATTTATGCCAACTGGAGGAACAGATG
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taatttctggttttcctttcactcttattagttatattactgatagtctgatgtataactaatcaacttg-atatctgttt-tgggtattac-attatcttagGTTGGCAATAGGTCCAGTGAATTTCACCCAGAAGTGAGAAGAGTGAGGCGTGAAGGATCCTATATTTATGAGGAATTTATGCCTACTGGAGGGACAGATG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT5G15070.1 (Arabidopsis thaliana), 3'ss of exon 8
cactagatttttagcttc--tattttcattgtaaatgtttgt--ccatacatcttatacttcttccgtgtgca-tacacacatataatttt-tattattgtttcagGTTGGTAACCGCTCAAGTGAGTTCCATCCAGAGGTTAGAAGAGTGAGGCGTGAAGGCTCTTATATATATGAGGAATTTATGCCAACTGGAGGAACAGATG
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------cttctcggattgaacattttagtttcaaatgattgtaataatttgtggcacatttctgtggttagcaatatttctttctgacccaatgtttttgttttagGTTGGGAATCGATCAAGTGAGTTTCATCCTGATGTCAGAAGAGTAAGGAGAGAAGGTTCTTATATATATGAGGAGTTTATGCCTACTGGGGGAACTGATG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G01310.2 (Arabidopsis thaliana), 3'ss of exon 8
-cactagattttt------agcttc--tattttcattgtaaatgtttgtccatacatc-ttatacttct------tccgtgtgcatacacacatataatttttat-----tattgtttcagGTTGGTAACCGCTCAAGTGAGTTCCATCCAGAGGTTAGAAGAGTGAGGCGTGAAGGCTCTTATATATATGAGGAATTTATGCCAACTGGAGGAACAGATG
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gtactgcatccttctgcagaacttctctgttctggatcgaactggttattctgatattgtcataattctgattagctccttttcttcctaatatatttcgcttgtccccatcttactacagATTGGGAACCGATCAAGTGAATTTCATCCTGACGTCAGAAGGGTAAGGAGAGAAGGCTCTTATATATACGAGGAGTTTATGGCCACCGGAGGAACTGATG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: EFJ07403 (Selaginella moellendorffii), 3'ss of exon 7
cactagatttttagcttctattttcattgtaaatgtttgtccatacatcttatacttcttccgtgtgcatacacacatataatttttattattgtttcagGTTGGTAACCGCTCAAGTGAGTTCCATCCAGAGGTTAGAAGAGTGAGGCGTGAAGGCTCTTATATATATGAGGAATTTATGCCAACTGGAGGAACAGATG
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----------------------------------------------gtgatgaagcattaagcaaaatgtaacctcttacccgatgtattaatgccgcagATTGGAAATCGTTCAAGTGAGTTTCATCCCGAGATAAGACGAGTTCGAAGAGAAGGCTCTTATATCTATGAGGAGTTTATGCCAACTGGGGGAACAGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catcttatacttcttccgtgtgcatacacacatataatttttattattgtttcagGTTGGTAACCGCTCAAGTGAGTTCCATCCAGAGGTTAGAAGAGTGAGGCGTGAAGGCTCTTATATATATGAGGAATTTATGCCAACTGGAGGAACAGATG
ttgtttc CT-rich tract
atacacacatataatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cactagatttttagcttctattttcattgtaaatgtttgtccatacatcttatacttcttccgtgtgcatacacacatataatttttattattgtttcagGTTGGTAACCGCTCAAGTGAGTTCCATCCAGAGGTTAGAAGAGTGAGGCGTGAAGGCTCTTATATATATGAGGAATTTATGCCAACTGGAGGAACAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - ccataca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acacaca