Sequence
atgc intronic sequence ATGC exonic sequence...ttattagttggatagcaaatgttatttgttatcatatttccaactgtatttgtttgctattgaagtaccttttgctacagaatctattggtaatttgcagGCTGCAAAGAAGGGGGAACCCTTTTGGGACAGTCCATGGGGGCCTGGGAGACCTGGATGGCATATTGAGTGCAGTGCCATGAGTGCTGCTTATCTGGGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g06470.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA06G06990.1 (Glycine max), 3'ss of exon 4
------------------------------------------------tta--ttagttggatagcaaatgttatttgttatcatatttccaactgtatttgtttgctattgaagtaccttttgctacagaatctattggtaatttgcagGCTGCAAAGAAGGGGGAACCCTTTTGGGACAGTCCATGGGGGCCTGGGAGACCTGGATGGCATATTGAGTGCAGTGCCATGAGTGCTGCTTATCTGGGTT
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gtataatacatcagtactaataatgataacacggatttgttaaacatgttgatttcattatatattacaaataaatgattattatattcttgaa-atcttaatatagtttggaacttacttaaggtggatt-tccaatgctattctgcagTCTGCAAAGCCGGGGGAGCCATTTTGGGAGAGTCGCTGGGGTCCTGGAAGACCTGGGTGGCATATTGAATGCAGTGCCATGAGTGCAGCTTATCTTGGTT
upper sequence: Vv04s0008g06470.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA04G06910.1 (Glycine max), 3'ss of exon 4
------------------------------------------------tta--ttagttggatagcaaatgttatttgttatcatatttccaactgtatttgtttgctattgaagtaccttttgctacagaatct-attggtaatttgcagGCTGCAAAGAAGGGGGAACCCTTTTGGGACAGTCCATGGGGGCCTGGGAGACCTGGATGGCATATTGAGTGCAGTGCCATGAGTGCTGCTTATCTGGGTT
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gtataatatatcagtatgaataatgataacacaaatttgttaaatatgttgatttcattatatattacaaaccaatgattattatattcttgaa-atcttaatttagttcagaacttactc--aatgtggattcttgatgctattctgcagTCTGCAAAGCCAGGGGAGCCATTTTGGGAGAGTCCCTGGGGTCCTGGAAGACCTGGGTGGCATATTGAATGCAGTGCCATGAGTGCAGCTTATCTTGGTT
upper sequence: Vv04s0008g06470.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G31170.2 (Arabidopsis thaliana), 3'ss of exon 4
ttattagttggatagcaaatgttatttgttatcatatttccaactgtatttgtttgctattgaagtaccttttgctacagaatctattggtaatttg--cagGCTGCAAAGAAGGGGGAACCCTTTTGGGACAGTCCATGGGGGCCTGGGAGACCTGGATGGCATATTGAGTGCAGTGCCATGAGTGCTGCTTATCTGGGTT
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----------------gtacgctttttagttacgttttagcc-ctacattgaatacttgtttactcatttaagtcttaaaagacttctgaatttttgggcagGCTGCAAAAGAAGGGGAACCCTTTTGGGAGAGTCCGTGGGGAAGAGGAAGGCCCGGTTGGCACATAGAGTGCAGTGCGATGAGCGCGGCTTATCTCGGTT
upper sequence: Vv04s0008g06470.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S504_12V6.1 (Physcomitrella patens), 3'ss of exon 4
----------------------------------------ttattagttggat---agcaaatgttatttgttatcatatttccaactgtatttgtttgctattgaagtaccttttgctacagaatc----tattggtaatttgcagGCTGCAAAGAAGGGGGAACCCTTTTGGGACAGTCCATGGGGGCCTGGGAGACCTGGATGGCATATTGAGTGCAGTGCCATGAGTGCTGCTTATCTGGGTT
| | |||| | | || ||| | | | | | | | || || |||| | | | || | || | || || ||| | | |||| ||| || || || || |||||||||||| ||||| |||||| | || || ||||| ||||| |||||||| |||||||| | || | |||
gtcagcgcccttgaaaatggtgagagaaaactcttctgtctgctgagttaggtcctagggaattagactaaatcttgtcctactaaa-gtgggtgttggttctcaaattttctctctctgaaggtcgctggtatcattttctcgcagAGTGCGAAACCCGGAGAGCCTGCTTGGGACAGTCCTTGGGGTCCTGGGCGCCCGGGCTGGCACATTGAATGCAGTGCTATGAGTGCGGAGCATTTAGGTC
upper sequence: Vv04s0008g06470.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ08456 (Selaginella moellendorffii), 3'ss of exon 4
ttattagttggatagcaaatgttatttgttatcatatttccaactgtatttgtttgctattgaagtaccttttgctacagaatctattggtaatttgcagGCTGCAAAGAAGGGGGAACCCTTTTGGGACAGTCCATGGGGGCCTGGGAGACCTGGATGGCATATTGAGTGCAGTGCCATGAGTGCTGCTTATCTGGGTT----------
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--------------------------gtttctaaaaaactcaagagt-ttttttctctcttttctctttttttctcacaatgccttct-----cttttagagctctaaagATGGCGAGCCTTCTTGGGAGAGTCCATGGGGAGCTGGGAGGCCGGGGTGGCATATCGAGTGTAGTGCCATGAGCGGTGCTACACTGGGAAGCTCCTTCGA
upper sequence: Vv04s0008g06470.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ15129 (Selaginella moellendorffii), 3'ss of exon 4
ttattagttggatagcaaatgttatttgttatcatatttccaactgtatttgtttgctattgaagtaccttttgctacagaatctattggtaatttgcagGCTGCAAAGAAGGGGGAACCCTTTTGGGACAGTCCATGGGGGCCTGGGAGACCTGGATGGCATATTGAGTGCAGTGCCATGAGTGCTGCTTATCTGGGTT----------
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--------------------------gtttctaaaaaactcgagtattttttttctcttttctc-ttttttttctcacaatgccttct-----cttttagagctctaaagATGGCGAGCCTTCTTGGGAGAGTCCATGGGGAGCTGGGAGGCCGGGGTGGCATATCGAGTGTAGTGCCATGAGCGGTGCTACACTGGGAAGCTCTTTCGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtatttgtttgctattgaagtaccttttgctacagaatctattggtaatttgcagGCTGCAAAGAAGGGGGAACCCTTTTGGGACAGTCCATGGGGGCCTGGGAGACCTGGATGGCATATTGAGTGCAGTGCCATGAGTGCTGCTTATCTGGGTT
aatctatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttattagttggatagcaaatgttatttgttatcatatttccaactgtatttgtttgctattgaagtaccttttgctacagaatctattggtaatttgcagGCTGCAAAGAAGGGGGAACCCTTTTGGGACAGTCCATGGGGGCCTGGGAGACCTGGATGGCATATTGAGTGCAGTGCCATGAGTGCTGCTTATCTGGGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - tagttgg
- - - - - - - gcaaatg
- - - - - - - - - - - - - - - - - - - tccaact
- - - - - - - - - - - - - - - - - - - - - - - - - tgtttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctattgg