Sequence
atgc intronic sequence ATGC exonic sequence...ggaattttatggggctggacccataagataatatatttgtgtgcctgtgtgtatcaatttttggtttatgcaaatgatggttttttggttattttttcagGAGATGATTACAAGATCAAGGTGTGGAATTATAAGTTACATAGGTGTTTATTTACCCTTTTTGGACACCTTGATTACATCCGCACAGTTCAGTTTCACCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g13430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os03g50340.1 (Oryza sativa), 3'ss of exon 1
------ggaattttatggggctggacccataagataatatatttgtgtgcctgtgtgtatcaatttttggtttatgcaaatgatggttttttggttattttttcagGAGATGATTACAAGATCAAGGTGTGGAATTATAAGTTACATAGGTGTTTATTTACCCTTTTTGGACACCTTGATTACATCCGCACAGTTCAGTTTCACCA
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catactggtgtccggtcgtattgc-tcggtggactaatatgattgggatgcggaatggttgaacttctgaactattctaa----gatttctgtgatgcattg-cagGTGATGATTACAAGATTAAGGTGTGGAATTACAAGACACACCGCTGCCTCTTCACACTTCACGGGCACCTTGACTATATTCGCACCGTGCAATTCCACCA
upper sequence: Vv18s0001g13430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os09g04110.2 (Oryza sativa), 3'ss of exon 1
ggaattttatggggctggacccataagata---atatatttgtgtgcctgtgtgtatcaatttttggtttatgcaaatgatggttttttggttattttttcagGAGATGATTACAAGATCAAGGTGTGGAATTATAAGTTACATAGGTGTTTATTTACCCTTTTTGGACACCTTGATTACATCCGCACAGTTCAGTTTCACCA
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--tgttccgcctggttgtatttctgggatagctgtgggctaatacgattgggatatggaattgttgaatcgtagattctaagatttctgtgatgcattg-cagGTGATGATTACAAGATTAAGGTGTGGAATTACAAGACACACCGCTGCCTCTTCACACTTCATGGGCACCTTGACTACATTCGCACCGTGCAATTCCACCA
upper sequence: Vv18s0001g13430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G04290.2 (Glycine max), 3'ss of exon 1
-------ggaattttatggggctggacccataagataatatatttgtgtgcctgtgtgtatcaatttttggtttatgcaaatgatggttttttggttattttttcagGAGATGATTACAAGATCAAGGTGTGGAATTATAAGTTACATAGGTGTTTATTTACCCTTTTTGGACACCTTGATTACATCCGCACAGTTCAGTTTCACCA
||||| | ||| ||| | | | | | || | | || |||||| | || || | | ||||| || || |||| |||||||||||||| ||||| ||||| |||||| | ||||||||||| || || ||| | |||||||||||||| ||||| || || || ||||| ||
ggtggagaagattttgatgtgctatgtacatcatgtgaaaggggagggttttgctttata-caatttacagcttttg------actatattttgtttcttgggacagGGGATGATTACAAGATTAAGGTTTGGAACTATAAGATGCATAGGTGTTTGTTCACTCTTCTAGGACACCTTGATTATATCCGTACTGTGCAATTTCATCA
upper sequence: Vv18s0001g13430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G12080.1 (Glycine max), 3'ss of exon 1
ggaattttatggggctggacccataagataatatatttgtgtgcctgtgtgtatcaat----ttttggtttatgcaaatgatggttttttggttatttttt-----------cagGAGATGATTACAAGATCAAGGTGTGGAATTATAAGTTACATAGGTGTTTATTTACCCTTTTTGGACACCTTGATTACATCCGCACAGTTCAGTTTCACCA
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--------------gtacattggtataataagttatttat-tgtccatgtggaaggggagggctttgctttatacaatttacagcttattgactatatattgtttcttgggacagGGGATGATTACAAGATTAAGGTTTGGAACTATAAGATGCATAGGTGCTTGTTCACTCTTCTAGGACACCTTGATTATATCCGTACCGTGCAATTTCATCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgtgtatcaatttttggtttatgcaaatgatggttttttggttattttttcagGAGATGATTACAAGATCAAGGTGTGGAATTATAAGTTACATAGGTGTTTATTTACCCTTTTTGGACACCTTGATTACATCCGCACAGTTCAGTTTCACCA
ttattttttc CT-rich tract
ttttttggttattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggaattttatggggctggacccataagataatatatttgtgtgcctgtgtgtatcaatttttggtttatgcaaatgatggttttttggttattttttcagGAGATGATTACAAGATCAAGGTGTGGAATTATAAGTTACATAGGTGTTTATTTACCCTTTTTGGACACCTTGATTACATCCGCACAGTTCAGTTTCACCA
- - - - - -gggctgg
- - - - - - - - - -cccataa
- - - - - - - - - - - - - - - - - - - - -tgcctgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcaaatg