Sequence
atgc intronic sequence ATGC exonic sequence...ttgtgttcagagtttttaaatttggtagtggaataccttttagttttaaggcgttgaatgcaattcttgtgccaccttgttgaaatggtttcttatgcagGATGATAATGATGAGCTCCGCCGTTCTCCTGGCACTCCTGTTTTTACTGCACCAGAGTGCTGTTTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g02990.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G133854_T01 (Zea mays), 3'ss of exon 7
--ttgtgttcagagtttttaaatttggtagtggaataccttttagttttaaggcgttgaatgcaattcttgtgccaccttgttgaaatggtttcttatgcagGATGATAATGATGAGCTCCGCCGTTCTCCTGGCACTCCTGTTTTTACTGCACCAGAGTGCTGTTTAG
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ttttatggtgaattcttcgggactatcaaatttgatatattgtcatattggtgtttt-actgatatattagtactgtgatacttatgcg-tttgcaatgtagGATGATGATGATATGCTTTGGAGATCTCCTGGCACTCCTGTTTTCACTGCCCCGGAGTGCTGTCAAG
upper sequence: Vv06s0004g02990.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G057084_T01 (Zea mays), 3'ss of exon 8
ttgtgttcagagtttttaaatttggtagt---ggaataccttttagttttaaggcgtt---gaatgcaa-ttcttgtgccaccttgttgaaatggtttcttatgcagGATGATAATGATGAGCTCCGCCGTTCTCCTGGCACTCCTGTTTTTACTGCACCAGAGTGCTGTTTAG
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---ttacttgagtagatatattcgatcttttcaaaatgtgtttttgtggcaaattgttctggactataaatttttgtatattggtgtt----ttacttgctacatagGATGATGATGATATGCTTTGGAGATCTCCTGGCACTCCTGTTTTCACTGCCCCGGAGTGCTGTCAAG
upper sequence: Vv06s0004g02990.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA11G20690.1 (Glycine max), 3'ss of exon 8
--ttgtgttcagagtttttaaatttggtagtggaataccttttagttttaaggcgttgaatgcaattcttgtgccaccttgttgaaatggtttc-ttatgcagGATGATAATGATGAGCTCCGCCGTTCTCCTGGCACTCCTGTTTTTACTGCACCAGAGTGCTGTTTAG
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agaaccctacatctgatctgaattgggtcattcggatcttgtcctaattcattctttcttcctaacttttacaacaaacttt---aacagtttcattttgcagGATGATAAAGATGAGCTTCGTCGATCACCTGGCACTCCTGTTTTCACTGCACCAGAGTGTATTTTAG
upper sequence: Vv06s0004g02990.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA12G07340.1 (Glycine max), 3'ss of exon 9
ttgtgttcagagtttttaaatttggt----agtggaatacct---tttagttttaaggcgttgaatgcaatt--cttgtgccaccttgttgaaatggtttcttatgcagGATGATAATGATGAGCTCCGCCGTTCTCCTGGCACTCCTGTTTTTACTGCACCAGAGTGCTGTTTAG---
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--------agaaccct-acatctgatctgaattggatcattcggatcttatcctaattcgtctattcttcctaacttttacaacaaactttaacagtttcattttgcagGATGATAAAGATGAGCTTCGGCGATCACCTGGCACTCCTGTTTTCACTGCACCAGAATGTATTTTAGGTG
upper sequence: Vv06s0004g02990.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA12G07340.4 (Glycine max), 3'ss of exon 9
ttgtgttcagagtttttaaatttggt----agtggaatacct---tttagttttaaggcgttgaatgcaatt--cttgtgccaccttgttgaaatggtttcttatgcagGATGATAATGATGAGCTCCGCCGTTCTCCTGGCACTCCTGTTTTTACTGCACCAGAGTGCTGTTTAG
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--------agaaccct-acatctgatctgaattggatcattcggatcttatcctaattcgtctattcttcctaacttttacaacaaactttaacagtttcattttgcagGATGATAAAGATGAGCTTCGGCGATCACCTGGCACTCCTGTTTTCACTGCACCAGAATGTATTTTAG
upper sequence: Vv06s0004g02990.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA13G40190.1 (Glycine max), 3'ss of exon 9
----ttgtgttcagagtttttaaat-ttggtagtggaataccttttagttttaaggcgt-tgaatgcaattcttgtgccaccttgttgaaatggtttcttatgcagGATGATAATGATGAGCTCCGCCGTTCTCCTGGCACTCCTGTTTTTACTGCACCAGAGTGCTGTTTAG
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atgattaatcatagagaatatatatattggtgatgttacatgt----gtcctaagatatatcttcacaactaataggaatcaacactttggt--ttctttttgcagGATGGCAATGATGAACTCCGTCGATCACCTGGCACTCCAGTTTTCACTGCACCAGAATGTTGTTTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaaggcgttgaatgcaattcttgtgccaccttgttgaaatggtttcttatgcagGATGATAATGATGAGCTCCGCCGTTCTCCTGGCACTCCTGTTTTTACTGCACCAGAGTGCTGTTTAG
tttcttat CT-rich tract
tttcttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgtgttcagagtttttaaatttggtagtggaataccttttagttttaaggcgttgaatgcaattcttgtgccaccttgttgaaatggtttcttatgcagGATGATAATGATGAGCTCCGCCGTTCTCCTGGCACTCCTGTTTTTACTGCACCAGAGTGCTGTTTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
-tgtgttc
- - - - - - - - - - - -ggtagtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -gaatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccacctt