Sequence
atgc intronic sequence ATGC exonic sequencegtttttctctctctccatccctctctcactctctctcttagtgtaagtttgatgtattgggagctaaattttgtatttgaacttctcatcctgcagACTGCTGCCAGCTATCATGCCATAGCCATAGCACTGTCTCTGATGGAAGCATATTCTCTCAGTGTGCAACATGAGCAGACTACACTCCAGATACTCCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g07530.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: LOC_Os04g55230.1 (Oryza sativa), 3'ss of exon 19
gtttttctctctctccatccctctctcactctctctcttagtgtaagtttgatgtattggg--agctaaattttgtatttgaacttctcatc---ctgcagACTGCTGCCAGCTATCATGCCATAGCCATAGCACTGTCTCTGATGGAAGCATATTCTCTCAGTGTGCAACATGAGCAGACTACACTCCAGATACTCCAAG
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taatgcatgtaactacggacaact-tcaatggcgtatttgttatgcatatgatcccgtgattcagttaacatgaattttcatgcatttctttgaacaacagACTGCTGCGAGCTATCATGCCATAGCCATAGCCCTCTCAATGATGGATGCATACTCCTTGAGTGTTCAGCATGAACAGACCACCTTACAGATACTTCAGG
upper sequence: Vv09s0002g07530.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GRMZM2G086030_T01 (Zea mays), 3'ss of exon 19
-gtttttctctctctccatccctctctcactctctctcttagtgtaagtttgatgtattgggagctaaattttgtatttg-----aacttctca-tcctgcagACTGCTGCCAGCTATCATGCCATAGCCATAGCACTGTCTCTGATGGAAGCATATTCTCTCAGTGTGCAACATGAGCAGACTACACTCCAGATACTCCAAG
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cgacatttgatttata-attcattgaacaatatgataaagaat-taggtcctgtg-atcgaattacttattatgaactaacaagcaatttttcaatcaaacagACTGCTGCAAGCTACCATGCCATAGCCATAGCCCTTTCAATGATGGACGCGTACTCCCTAAGCGTGCAACATGAACAAACAACCTTGCAGATACTTCAGG
upper sequence: Vv09s0002g07530.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GRMZM5G892758_T01 (Zea mays), 3'ss of exon 2
------gtttttctctctctccatccctctctcactctctctcttagtgtaagtt--tgatgtattgggagctaaattttgtatttgaacttctcatcctgcagACTGCTGCCAGCTATCATGCCATAGCCATAGCACTGTCTCTGATGGAAGCATATTCTCTCAGTGTGCAACATGAGCAGACTACACTCCAGATACTCCAAG
||| | || | || | | | | | ||| | || | | || | || |||| ||| || ||| ||||||||||| ||||| ||||| ||||||||||| || || ||||||| || || || || |||||||||||||| || || || | |||||||| || |
cacctgatttataattcattgaataatatgatgaataattgggtcc-tgtgatttaattacttactatgaactaacaagcaatttt---ttttcaatcaatcagACTGCTGCAAGCTACCATGCTATAGCCATAGCCCTTTCAATGATGGATGCGTACTCCCTAAGTGTGCAACATGAACAAACAACCATGCAGATACTTCAGG
upper sequence: Vv09s0002g07530.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA08G22850.1 (Glycine max), 3'ss of exon 18
gtttttctctctctccatccctctctcactctctctcttagtgtaagtttgatgtattgggagctaaattttgtatttgaacttctcatcctgcagACTGCTGCCAGCTATCATGCCATAGCCATAGCACTGTCTCTGATGGAAGCATATTCTCTCAGTGTGCAACATGAGCAGACTACACTCCAGATACTCCAAG
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gtcttactttctctccctccccctccccctccccctttcttc-----ccccatggat--ggaacaattctttataca-gtattttccatgttatagACTGCCGCAAGCTATCACGCCATAGCTATAGCTCTTTCATTGATAGATGCATTTTCTCTGAGTGTGCAACATGAGCAAACTACACTAAAGATACTTCAAG
upper sequence: Vv09s0002g07530.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA07G03250.1 (Glycine max), 3'ss of exon 20
gtttttctctctctccatccctctctcactctctctcttagtgtaagtttgatgtattgggagctaaattttgtatttgaacttctcatcctgcagACTGCTGCCAGCTATCATGCCATAGCCATAGCACTGTCTCTGATGGAAGCATATTCTCTCAGTGTGCAACATGAGCAGACTACACTCCAGATACTCCAAG
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--gtctctctctctctctccctttctccctccccccctctctcc---ccccatggat--ggaacagtgctttataca-gtattttccatgttatagACTGCCGCAAGCTATCACGCCATAGCTATAGCTCTTTCATTGATGGATGCATTTTCTCTGAGTATGCAACATGAGCAAACTACACTAAAGATACTTCAAG
upper sequence: Vv09s0002g07530.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: AT1G15290.1 (Arabidopsis thaliana), 3'ss of exon 17
gtttttctctctctccatccctctctcactctctctcttagtgtaagtttgatgtattgggagctaaattttgtatttgaacttctcatcctgcagACTGCTGCCAGCTATCATGCCATAGCCATAGCACTGTCTCTGATGGAAGCATATTCTCTCAGTGTGCAACATGAGCAGACTACACTCCAGATACTCCAAG
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----------------gttcctccctta---tctatcttgcctcaatttgcgcgcattcttaaactaatcatgctttctgtgttttactttgccagACTGCGGCAAGCTATCATGCAATAGCAGTGGCTCTCTCTTTCATGGAAGCACATTCATTGAGTGTGCAACATGAACAAACTACACTTCAGATACTTACTG
upper sequence: Vv09s0002g07530.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: EFJ08067 (Selaginella moellendorffii), 3'ss of exon 19
gtttttctctctctccatccctctctcactctctctcttagtgtaagtttgatgtattgggagctaa--attttgtatttgaacttctcatcctgcagACTGCTGCCAGCTATCATGCCATAGCCATAGCACTGTCTCTGATGGAAGCATATTCTCTCAGTGTGCAACATGAGCAGACTACACTCCAGATACTCCAAG
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------------------------------------------gtgatactatctcaaacaaaacaaatcagttttcatctggagtactt----tacagACTGCAGCAAGCTACCATGCAATTGCTATAGCACTCTCACTGATGGAAGCATATACACTCAGTGTCCATCACGAACAAACTACGTATCAAATCTTGCAAG
upper sequence: Vv09s0002g07530.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: EFJ24726 (Selaginella moellendorffii), 3'ss of exon 19
gtttttctctctctccatccctctctcactctctctcttagtgtaagtttgatgtattgggagctaa--attttgtatttgaacttctcatcctgcagACTGCTGCCAGCTATCATGCCATAGCCATAGCACTGTCTCTGATGGAAGCATATTCTCTCAGTGTGCAACATGAGCAGACTACACTCCAGATACTCCAAG
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------------------------------------------gtgatactatctcaaacaaaacaaatcagttttcatctggagtactt----tacagACTGCAGCAAGCTACCATGCAATTGCTATAGCACTCTCACTGATGGAAGCATATACACTCAGTGTCCATCACGAACAAACTACGTATCAAATTTTGCAAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|110698822|gb|EE076760.1|EE076760EST: ATGAAGCACTTAAGTGCAATCAAAGATTACTAGGAGTGGATCACATACAG ACTGCTGCCAGCTATCATGCCATAGCCATAGCACTGTCTCTGATGGAAGCA
genomic: ATGAAGCACTTAAGTGCAATCAAAGATTACTAGGAGTGGATCACATACAGgtttttctct ... catcctgcagACTGCTGCCAGCTATCATGCCATAGCCATAGCACTGTCTCTGATGGAAGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtaagtttgatgtattgggagctaaattttgtatttgaacttctcatcctgcagACTGCTGCCAGCTATCATGCCATAGCCATAGCACTGTCTCTGATGGAAGCATATTCTCTCAGTGTGCAACATGAGCAGACTACACTCCAGATACTCCAAG
agctaaa putative branch site (score: 3)
cttctcatcct putative PPT
taaattttgtatttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttttctctctctccatccctctctcactctctctcttagtgtaagtttgatgtattgggagctaaattttgtatttgaacttctcatcctgcagACTGCTGCCAGCTATCATGCCATAGCCATAGCACTGTCTCTGATGGAAGCATATTCTCTCAGTGTGCAACATGAGCAGACTACACTCCAGATACTCCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG