Sequence
atgc intronic sequence ATGC exonic sequence...catttgaccttgatgggctttccaatggaggcatttgcaaactgtatctcatttttttacaagtttgcttaccttgaacataaattggctttgtttgcagGGTTGAATTTCCATGAATTGCTGGACATCCCACAAGGAGACCGCCGGAAGTACCATGATGATGTCACTGTCATGGTGATCTCCCTAGAAGGGAGAATTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0012g01100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g46490.1 (Oryza sativa), 3'ss of exon 3
--------catttgaccttgatgggctttccaatggaggcatttgcaaactgtatctcatttttttacaagt--ttgcttaccttgaacataaattggctttgtttgcagGGTTGAATTTCCATGAATTGCTGGACATCCCACAAGGAGACCGCCGGAAGTACCATGATGATGTCACTGTCATGGTGATCTCCCTAGAAGGGAGAATTTG
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acggtttccagttgtctttaatg-----tcaaatacatgtaccttt---ttttttctcctttctccctcagtaataccatgatttaacttttacttttgtttcttt--agGTATGGATTTTTATGAGTTACTAGATATACCTCAAGGGGACCGAAGAAAATACCATGATGATGTCACTGTCATGGTTATTTCTCTGGAAGGGAGAATCTG
upper sequence: Vv02s0012g01100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G23870.1 (Glycine max), 3'ss of exon 3
catttgaccttgatgggctttccaatgg-aggcatttgcaaactgtatctcatttttttacaagtttgcttaccttgaacataaattggctttgttt---gcagGGTTGAATTTCCATGAATTGCTGGACATCCCACAAGGAGACCGCCGGAAGTACCATGATGATGTCACTGTCATGGTGATCTCCCTAGAAGGGAGAATTTG
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----ggaatatgctgatttcatttgtagtagatttttttgtcctgtcaactattttgtttatatagcacacatttggagtgatgtttgaatcgaattatggcagGAATGGATTTTCATGAATTGCTGGATATCCCACAAGGAGATCGGAGGAAGTATCACGATGACGTTACTGTCATGGTGATATCACTTGAAGGGAGAATCTG
upper sequence: Vv02s0012g01100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G16460.1 (Glycine max), 3'ss of exon 3
-catttgaccttgatgggctttccaatggaggcatttgcaaactgt-atctcatttttttacaagtttgcttaccttgaacataaattggctttgtttgcagGGTTGAATTTCCATGAATTGCTGGACATCCCACAAGGAGACCGCCGGAAGTACCATGATGATGTCACTGTCATGGTGATCTCCCTAGAAGGGAGAATTTG
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gatttcgtttctagtagatttttttggcttgtcaaatgtcaactattatgtttatataacacgcatttagagtggtgatgtttgaatcgaattg--tggcagGAATGGATTTTCATGAATTGCTAGATATCCCACAAGGAGATCGGAGGAAGTATCACGATGATGTTACTGTCATGGTGATATCACTTGAAGGGAGAATCTG
upper sequence: Vv02s0012g01100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G04540.1 (Glycine max), 3'ss of exon 3
catttgaccttgatgggctttccaatggaggcatttgcaaactgtatctcatttttttacaagtttgcttaccttgaacataaattggctttgtt--tgcagGGTTGAATTTCCATGAATTGCTGGACATCCCACAAGGAGACCGCCGGAAGTACCATGATGATGTCACTGTCATGGTGATCTCCCTAGAAGGGAGAATTTG
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ccccagcctgggatgggtgttaaagta-actcaagaaaataagataggaaagaaaataatcagtgcaat-atttagtgtatgaccagatttaattgttgcagGAATGGATTTCCATGAGTTGCTGGATATCCCTCAAGGAGATCGGAGGAAGTACCATGATGATGTTACCGTTATGGTGGTATCACTTGAAGGAAGAATCTG
upper sequence: Vv02s0012g01100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G40780.1 (Glycine max), 3'ss of exon 5
-catttgaccttgatgggctttccaatggaggcatttgcaaactgtatctcatttttttacaagtttgct-taccttgaacataaattggctttgtt--tgcagGGTTGAATTTCCATGAATTGCTGGACATCCCACAAGGAGACCGCCGGAAGTACCATGATGATGTCACTGTCATGGTGATCTCCCTAGAAGGGAGAATTTG
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ttaaagtaactcaagaaaataatcaatgcaa-tatttg--aatta-acttgttgcgctcaaatcattgcaataattagtgtatgaccagatttaattgttgcagGAATGGATTTCCATGAGTTGCTGGATATCCCTCAAGGAGATCGGAGGAAGTACCATGATGATGTTACCGTTATGGTGGTATCACTCGAAGGAAGAATCTG
upper sequence: Vv02s0012g01100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S55_212V6.1 (Physcomitrella patens), 3'ss of exon 4
-catttgaccttgatgggctttccaatggaggcatttgcaaactgtatctcatttttttacaagtttgcttaccttgaacataaattggcttt---gtttgcagGGTTGAATTTCCATGAATTGCTGGACATCCCACAAGGAGACCGCCGGAAGTACCATGATGATGTCACTGTCATGGTGATCTCCCTAGAAGGGAGAATTTG
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gaggttgttccttacggtcaat---aactattcatat-caggcaaagttttgttcaaatttgagagcgcgttaattaactgctgtttggttgttggggatgcagGAATGGAATTGAACGAACTTCTGGATATCCCACAAGGTGATCGCCGCAAGTACCATGATGATGTCTCTGTGATGGTTATTTCTCTTGAAGGCAGAATTTG
upper sequence: Vv02s0012g01100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S411_11V6.1 (Physcomitrella patens), 3'ss of exon 4
-catttgaccttgatgggctttccaatggaggcatttgcaaactgtatctcatttttttacaagtttgcttaccttgaacataaattggctttgtt---tgcagGGTTGAATTTCCATGAATTGCTGGACATCCCACAAGGAGACCGCCGGAAGTACCATGATGATGTCACTGTCATGGTGATCTCCCTAGAAGGGAGAATTTG
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attcttgttcttatttaatagtgtgttgtctga--ctggtatttggacgttggtttttctcttggc--cttgcgcctaacgttacgtctttttctgagatgcagGAATGGAATTGAATGAACTTCTGGATATCCCACAAGGCGATCGCCGCAAGTACCATGACGATGTTTCAGTGATGGTTATCTCTCTTGAAGGCAGAATTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atctcatttttttacaagtttgcttaccttgaacataaattggctttgtttgcagGGTTGAATTTCCATGAATTGCTGGACATCCCACAAGGAGACCGCCGGAAGTACCATGATGATGTCACTGTCATGGTGATCTCCCTAGAAGGGAGAATTTG
tgcttac putative branch site (score: 2)
ctttgttt putative PPT
atttttttacaagttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catttgaccttgatgggctttccaatggaggcatttgcaaactgtatctcatttttttacaagtttgcttaccttgaacataaattggctttgtttgcagGGTTGAATTTCCATGAATTGCTGGACATCCCACAAGGAGACCGCCGGAAGTACCATGATGATGTCACTGTCATGGTGATCTCCCTAGAAGGGAGAATTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - cttgatg
- - - - - - - - gctttcc
- - - - - - - - - - - - - ggaggca
- - - - - - - - - - - - - - - - - -tgcaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -taccttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acataaa