Sequence
atgc intronic sequence ATGC exonic sequence...gtaaatttgctacctgatgggctattcatccattctaccttttagttatgactgctaaaaaattaattgaataaatgctttcccacatgattctctgcagGAAATTTTCTTGTCAGCAAGGAACCTCCACATCGTCCAGTTTTGCTTGACTTTGGGCTTACAAAGTCACTATCAAGCTCTATGAAACAAGCACTAGCGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g02740.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os06g48770.2 (Oryza sativa), 3'ss of exon 8
----gtaaatttgcta---cctgatgggctattcatcca---------ttctaccttttagttatgactgctaaaaaattaattgaataaatgctttcccacatgattctctgcagGAAATTTTCTTGTCAGCAAGGAACCTCCACATCGTCCAGTTTTGCTTGACTTTGGGCTTACAAAGTCACTATCAAGCTCTATGAAACAAGCACTAGCGAA
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gtatttcaattttatgtgccttgaagagatcttctgtcacctcaatttttttattctccatctgtaattcttgcaaattcatttgtgctgacaatgcattat----ttttctgtagGCAATTTTCTTGTTAGCAAGGAACCTCCACACAAGCCGATTCTCCTTGATTTTGGGCTTACTAAACGCATATCTCAATCAATGAGGCAGGCACTAGCAAA
upper sequence: Vv04s0008g02740.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G140917_T01 (Zea mays), 3'ss of exon 9
----gtaaatttgctacctgatgggctattcatccattctaccttttagttatgactgctaaaaaattaattgaataaatgctttcccacatgattctct---gcagGAAATTTTCTTGTCAGCAAGGAACCTCCACATCGTCCAGTTTTGCTTGACTTTGGGCTTACAAAGTCACTATCAAGCTCTATGAAACAAGCACTAGCGAA
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gtatttagaatatattcattttgagaaggc--ttcgttc-acctttcttctctaattgatcgcacattaattca-----tacttgtgtgcatttttctcttatgtagGCAATTTTCTTGTGAGCAAGGAACCTCCACATAAACCGATTCTCCTTGATTTTGGGCTCACTAAGCGCATATCTGAATCTATGAGGCAGGCACTAGCAAA
upper sequence: Vv04s0008g02740.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA14G20110.1 (Glycine max), 3'ss of exon 8
---------------------gtaaatttgctacctgatgggctattcatccattctaccttttagttatgactgctaaaaaattaattgaataaat---gctttcccacatgattctctgcagGAAATTTTCTTGTCAGCAAGGAACCTCCACATCGTCCAGTTTTGCTTGACTTTGGGCTTACAAAGTCACTATCAAGCTCTATGAAACAAGCACTAGCGAA
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gtactctctctctctctccctctacgtttgtg--cttatgta-tgcatgtgcatatgatgtaacacttccgattgttccatgtgctcatgaactattttggctctcttactggaatcatcatagGAAATTTTCTTGTGAGCAAGGAATCTCCACATCGTCCTATTTTACTTGACTTTGGCCTTACAAAGAAACTATCAAGCACCATTAAGCAAGCACTTGCAAA
upper sequence: Vv04s0008g02740.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA17G24420.1 (Glycine max), 3'ss of exon 7
----------------------------------------------------gtaaatttgctacctgatg----ggctattcatccattctaccttttagttatgactgctaaaaaattaattgaataaat---gctttcccacatgattctctgcagGAAATTTTCTTGTCAGCAAGGAACCTCCACATCGTCCAGTTTTGCTTGACTTTGGGCTTACAAAGTCACTATCAAGCTCTATGAAACAAGCACTAGCGAA
||||| | | || || |||| | | | | | || ||| | | | ||| | | ||| || | || || |||||||||||||||| ||||||||| |||| |||||||| |||| ||||||||||| ||||| ||| |||||||||| | || || |||||||| || ||
gtactctctccctctacgtttgtgcttgtgtttgcatgtgcaaatgatattatggaattttcaatttgttgtagaaactatataagaacaatctgtaacacttctgattattccatgtgctcacgaactattttggctctcttaatggaatcatcacagGAAATTTTCTTGTGAGCAAGGAATCTCCCCATCGTCCTATTTTACTTGACTTTGGCCTTACGAAGAAACTATCAAGCACCATTAAGCAAGCACTTGCAAA
upper sequence: Vv04s0008g02740.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT5G24810.2 (Arabidopsis thaliana), 3'ss of exon 8
------------gtaaatttgctacctgatgggctattcatccat-tctaccttttagttatga--ctgctaaa------aaattaattgaataaatgctttcccacatgattctctgcagGAAATTTTCTTGTCAGCAAGGAACCTCCACATCGTCCAGTTTTGCTTGACTTTGGGCTTACAAAGTCACTATCAAGCTCTATGAAACAAGCACTAGCGAA
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gtatggtctgaaacatgatcgtttttttggagttcgccaatttttatctgtcttgtaactaccatgctgcttaggcatagaatttattctaatacaagtatacgtctactctgttttgcagGAAATTTTCTTGTTAGTAAGGAACCACAACATCGTCCAATTTTACTTGATTTCGGGCTTTCAAAGAAAATCTCACACTCCTTGAAACAAGCACTAGCCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatgactgctaaaaaattaattgaataaatgctttcccacatgattctctgcagGAAATTTTCTTGTCAGCAAGGAACCTCCACATCGTCCAGTTTTGCTTGACTTTGGGCTTACAAAGTCACTATCAAGCTCTATGAAACAAGCACTAGCGAA
ttctctgc CT-rich tract
taaaaaattaattgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatttgctacctgatgggctattcatccattctaccttttagttatgactgctaaaaaattaattgaataaatgctttcccacatgattctctgcagGAAATTTTCTTGTCAGCAAGGAACCTCCACATCGTCCAGTTTTGCTTGACTTTGGGCTTACAAAGTCACTATCAAGCTCTATGAAACAAGCACTAGCGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - ttgctac
- - - - - - - tgatggg
- - - - - - - - - - - - -tcatcca
- - - - - - - - - - - - - - - - ttctacc
- - - - - - - - - - - - - - - - - - - - - - - - tgactgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaataaa