Sequence
atgc intronic sequence ATGC exonic sequencegtatgggaatttgatgggatgatgcaagtggattatttacagataaatctagttctctatgttagatttagagttaattgatttgcagGATGTCTTTGATTTGCCGTTCCACATGGCTAGAGATCAAATAGAAGAAAGTCTCAGAAATAAGATGACCTCTATAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0052g00890.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os08g14460.1 (Oryza sativa), 3'ss of exon 10
------------------------------------------------------------------------------------gtatgggaatttgatgggatgatg-caagtggattatttacagataaatcta-gttctctatgttagat-ttagagttaattgatttgcagGATGTCTTTGATTTGCCGTTCCACATGGCTAGAGATCAAATAGAAGAAAGTCTCAGAAATAAGATGACCTCTATAAAG
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gtatgcattctcattcttcattacatagtttgctcttggtatctgtcttcttctaaaagtcttgatgatttttcttcatttatcaaataataataaaaaattttggtgtcgcatgacttcccctcagttggtcacatgatcaccatttgatttctttgcggttccctcctgccagGATGTCTTTGATTTGCCCTTTCACATGGCTAGAGACCAGATTGAAGAGAGTTTGCGCACTAAAATGGCTTCCATAAAG
upper sequence: Vv11s0052g00890.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA17G07040.1 (Glycine max), 3'ss of exon 11
gtatgggaatttgatgggatgatgcaagtggattatttacagataaatctagttctctatgttagatttagagttaattgatttgcagGATGTCTTTGATTTGCCGTTCCACATGGCTAGAGATCAAATAGAAGAAAGTCTCAGAAATAAGATGACCTCTATAAAG
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gtatggaaggtttttaa----attttcatactttattc-cgtgtcaaactgccttctgaaatta----ttgagtttgtt-acttgcagGATGTATTTGACCTTCCTTTTCACATGGCCAGAGATCAAATAGAAGAAAGTCTTCGCAACAAAATGGCTTCTATAAAG
upper sequence: Vv11s0052g00890.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA13G00980.1 (Glycine max), 3'ss of exon 11
gtatgggaatttgatgggatgatgcaagtggattatttacagataaatctagttctctatgttagattta-gagttaattgatttgcagGATGTCTTTGATTTGCCGTTCCACATGGCTAGAGATCAAATAGAAGAAAGTCTCAGAAATAAGATGACCTCTATAAAG
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gtatggaagattattaa----attttcatactttattccc---tatgtcaaactgcct-tctgaaattaatgagtttggt-acttgcagGACGTATTTGACCTTCCTTTTCACATGGCCAGAGATCAAATAGAAGAAAGTCTTCGTAACAAAATGGCTTCTATAAAG
upper sequence: Vv11s0052g00890.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: PP1S145_44V6.1 (Physcomitrella patens), 3'ss of exon 11
---------------------------------------------------------------------------------------gtatgggaatttgatgggatgatgca-agtggattatttacagataaatct---agttctctatgttag-atttagagttaattgatttg---cagGATGTCTTTGATTTGCCGTTCCACATGGCTAGAGATCAAATAGAAGAAAGTCTCAGAAATAAGATGACCTCTATAAAG
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gtaattttcatgtgtactttgccttcaagctcatgtaagtttcagttgctgaatttcctgctcttgagactggtaaaataatcagttgtagacatgtcctgtgtctggctgtacaggcaaaagtttagatgcgaagctttcaatcattcacttcaccaaactgaattgatgcacttggtgcagGATGTATTTGACCTACCGTTTCACATGGCTAGAGATCAAATTGAACAAAGTTTACGTGCTAAAATGTCTATTATCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatttacagataaatctagttctctatgttagatttagagttaattgatttgcagGATGTCTTTGATTTGCCGTTCCACATGGCTAGAGATCAAATAGAAGAAAGTCTCAGAAATAAGATGACCTCTATAAAG
aattgat putative branch site (score: 4)
atttagagttaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgggaatttgatgggatgatgcaagtggattatttacagataaatctagttctctatgttagatttagagttaattgatttgcagGATGTCTTTGATTTGCCGTTCCACATGGCTAGAGATCAAATAGAAGAAAGTCTCAGAAATAAGATGACCTCTATAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG