Sequence
atgc intronic sequence ATGC exonic sequencegttgacagtttccaaacttaaataggattttcttttatgtgattctgtacatcattctgaaccaacagcttctttagGGAGAGAATAAAGGGTACCTTGTTTGCAAAAAGAAGATGGCAACATCTCCAGAAGCTTTGTGTTGCTTTTGTCCTCAGCCTTTTCGGCAGTTTGTTGAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g00160.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os05g11140.1 (Oryza sativa), 3'ss of exon 9
---------gttgacagtttccaaacttaaataggattttcttttatgtgattctgtacatcatt----ctgaaccaacagcttctttagGGAGAGAATAAAGGGTACCTTGTTTGCAAAAAGAAGATGGCAACATCTCCAGAAGCTTTGTGTTGCTTTTGTCCTCAGCCTTTTCGGCAGTTTGTTGAAT
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gtgaagtttgtttgcagtgcgaatctttttttatctgttcgttttgcaaccttttgtccttagttacctttgtgttgata--tattttagGGAGAGAATAAAGGTTTCCTTGTTTGCAAGAAAAAAATGGCGACCTCTCCAGAATCTTTGTGCTGCTTCTGTCCACAACCTTTCCGGCAATTTATTGAGT
upper sequence: Vv04s0008g00160.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os01g10150.1 (Oryza sativa), 3'ss of exon 9
gttgacagtttccaaacttaaataggattttcttttatgtgattctgtacatcattctgaaccaacagcttctttagGGAGAGAATAAAGGGTACCTTGTTTGCAAAAAGAAGATGGCAACATCTCCAGAAGCTTTGTGTTGCTTTTGTCCTCAGCCTTTTCGGCAGTTTGTTGAAT
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gttaattttgattgattttatgacttttttgttgctacatgcactaatttcgttttgtaattcatgaatgaacttagGGAGAGAATAAAGGTTTTCTTGTTTGCAAGAAAAAGATGGCAACCTCTCCAGAATCTTTATGTGGCATTGGTCCACCACCATTTCGTCAATTTGTTGAGT
upper sequence: Vv04s0008g00160.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os01g54100.2 (Oryza sativa), 3'ss of exon 8
gttgacagtttccaaacttaa-ataggattttcttttat-gtgattctgtacatcattctgaaccaaca-gcttctttagGGAGAGAATAAAGGGTACCTTGTTTGCAAAAAGAAGATGGCAACATCTCCAGAAGCTTTGTGTTGCTTTTGTCCTCAGCCTTTTCGGCAGTTTGTTGAAT
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---gtaattcgccggacccaccattccatttattctgattgtagtaatacatttaaataattgatagtgtgtgcctgcagGGTGAAAACAAGGGTTTCCTTGTGTGCAAAAAGAAAATGGCTACGTCTCCAGAATCATTGTGCTGCTTTTGCCCACAACCCTTTAGGGAGTTTGTAGAGT
upper sequence: Vv04s0008g00160.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G116151_T03 (Zea mays), 3'ss of exon 9
gttgacagtttccaaacttaaataggattttcttttatg-tgattctgtacatcattctgaaccaacagcttctttagGGAGAGAATAAAGGGTACCTTGTTTGCAAAAAGAAGATGGCAACATCTCCAGAAGCTTTGTGTTGCTTTTGTCCTCAGCCTTTTCGGCAGTTTGTTGAAT
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gtgaactttgttacaacctccaaattttcttaattactgatccccccttactcaaattttcagcaa-aatgattttagGGGGAGAATAAAGGTTTCCTTGTCTGCAAGAAAAAGATGGCAACTTCTCCAGAATCTTTGTGTTGCTTTTGCCCACAACCTTTCCGACAATTTATTGAGT
upper sequence: Vv04s0008g00160.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT2G25760.1 (Arabidopsis thaliana), 3'ss of exon 9
gttgacagtttccaaacttaaataggattttcttttatgtgattctgtacatcattc--tgaaccaacagcttctttagGGAGAGAATAAAGGGTACCTTGTTTGCAAAAAGAAGATGGCAACATCTCCAGAAGCTTTGTGTTGCTTTTGTCCTCAGCCTTTTCGGCAGTTTGTTGAAT
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gttgg-ggacactaaagttattt--gttttatttcctggcaactttccttgtcaatcattaacttggtctatttgttagGGAGAGAACAAAGGTTTCCTTGTTTGCAAGAAGAAGATGGCCACTTCCCCAGAAACTCTTTGCTGCTTCTGTCCCCAACCTTTTCGTCAGTTTGTCGAGT
upper sequence: Vv04s0008g00160.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT2G25760.2 (Arabidopsis thaliana), 3'ss of exon 9
gttgacagtttccaaacttaaataggattttcttttatgtgattctgtacatcattctgaaccaacagcttctttagGGAGAGAATAAAGGGTACCTTGTTTGCAAAAAGAAGATGGCAACATCTCCAGAAGCTTTGTGTTGCTTTTGTCCTCAGCCTTTTCGGCAGTTTGTTGAAT------
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--------------gttatttgttttatttcctggcaactttccttgtcaatcatt--aacttggtctatttgttagggagagAACAAAGGTTTCCTTGTTTGCAAGAAGAAGATGGCCACTTCCCCAGAAACTCTTTGCTGCTTCTGTCCCCAACCTTTTCGTCAGTTTGTCGAGTATGTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taggattttcttttatgtgattctgtacatcattctgaaccaacagcttctttagGGAGAGAATAAAGGGTACCTTGTTTGCAAAAAGAAGATGGCAACATCTCCAGAAGCTTTGTGTTGCTTTTGTCCTCAGCCTTTTCGGCAGTTTGTTGAAT
cttcttt CT-rich tract
ttttcttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgacagtttccaaacttaaataggattttcttttatgtgattctgtacatcattctgaaccaacagcttctttagGGAGAGAATAAAGGGTACCTTGTTTGCAAAAAGAAGATGGCAACATCTCCAGAAGCTTTGTGTTGCTTTTGTCCTCAGCCTTTTCGGCAGTTTGTTGAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC