Sequence
atgc intronic sequence ATGC exonic sequence...gcttggaagcttcttgtattagtataatcatataccctaatatggccagcagaagaatagattatttttagctttaaaatgctactctttacttgttcagGTTAGTAGTGCCCATAGTTGGACATGTATGGACCTTTATGTCTTTGCAACTCCATACCAAGTGACATGGGATTACTACTTTTTGTCTCGGGAGCATACCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0090g00130.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os01g58114.2 (Oryza sativa), 3'ss of exon 1
gcttggaagcttcttgtattagtataatcatataccctaatatggcca-gcagaagaatagattatttttagctttaaaatgctactct-ttacttgtt-cagGTTAGTAGTGCCCATAGTTGGACATGTATGGACCTTTATGTCTTTGCAACTCCATACCAAGTGACATGGGATTACTACTTTTTGTCTCGGGAGCATACCA
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ttcttaatacaagtta-attgcttt--ctgaaggttctcatttctctacacatgaatattcttcttatttcactattgatcctgacactgttccttgttgcagACAAACAAAGCTCATAGCTGGACTTGCATAGACCTTTATGTGTTTGCAACACCATATCGTGTTACATGGGATTACTACTTTGTAGGTCGTGAGCATACCC
upper sequence: Vv19s0090g00130.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G139374_T02 (Zea mays), 3'ss of exon 1
gcttggaagcttcttgtattagtataatcatataccctaatatggccagcagaagaatagattatttttagcttta----aaatgctactctttacttgttcagGTTAGTAGTGCCCATAGTTGGACATGTATGGACCTTTATGTCTTTGCAACTCCATACCAAGTGACATGGGATTACTACTTTTTGTCTCGGGAGCATACCA
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tcttgcag---tgtaatttcagtaaaattctgc-tcctaattttctgcgcggttgttttcctttgccttaatgttggtctaaaatcgattataaacttgcgcagACATCCAAAGCACACAGCTGGACTTGCATAGATCTGTATGTATTTGCAACACCATACAGAGTTACATGGGATTACTACTTTCTGGGGCGAGAGCACACTC
upper sequence: Vv19s0090g00130.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S191_130V6.3 (Physcomitrella patens), 3'ss of exon 2
gcttggaagcttcttgtattagtataatca--tataccctaatatggccagcagaagaatagattatttttagctttaaaatg--ctactctttacttgttcagGTTAGTAGTGCCCATAGTTGGACATGTATGGACCTTTATGTCTTTGCAACTCCATACCAAGTGACATGGGATTACTACTTTTTGTCTCGGGAGCATACCA
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----tgttactcatagctttaaccttgacaattttatgcaagcgtcgtctttcatgtcataattacaattcagtgatgattttacttccgtttcatgtgtgcagACAAGTAGCGCACACAGCTGGACCTGCTTAGATCTTTACGTATTTGCAACTCCATACCGTGTGACTTGGGATTACTACTTTACTGCTCGCAATCACACTC
upper sequence: Vv19s0090g00130.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ34102 (Selaginella moellendorffii), 3'ss of exon 1
gcttggaagcttcttgtattagtataatcatataccctaatatggccagcagaagaatagattatttttagctttaaaatgctactctttacttg--ttcagGTTAGTAGTGCCCATAGTTGGACATGTATGGACCTTTATGTCTTTGCAACTCCATACCAAGTGACATGGGATTACTACTTTTTGTCTCGGGAGCATACCA
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---------------------gtatgttcttaaggaagaatgttggtgttcttctcttctttttttttgtcatgtcgtagaacagtcgtggtttcgttccagACAAGCAATGCTCACAGTTGGACATGTATGGACTTGTATATCTTTGCCACTCCTTACCGAGTTACTTGGGACTACTACTTCATTGGCCGCACGCACACCA
upper sequence: Vv19s0090g00130.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ12449 (Selaginella moellendorffii), 3'ss of exon 1
gcttggaagcttcttgtattagtataatcatataccctaatatggccagcagaagaatagattatttttagctttaaaatgctactctttacttgttcagGTTAGTAGTGCCCATAGTTGGACATGTATGGACCTTTATGTCTTTGCAACTCCATACCAAGTGACATGGGATTACTACTTTTTGTCTCGGGAGCATACCA
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---------------gtatgttcttaaggaagaatgttggtgttcttctcttc---tttttttttgtcatgtcttagaacagtcgtggtttcgt-tccagACAAGCAATGCTCACAGTTGGACATGTATGGACTTGTATATCTTTGCCACTCCTTACCGAGTTACTTGGGACTACTACTTCATTGGCCGCACGCACACCAMapped 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|161708629|gb|FC061312.1|FC061312EST: TCAACAACAAAAGTGGGAGCGAATTTGGTGGGGGCACACTTCATATTAAG GTTAGTAATGCCCATAGTTGGACATGTATGGACCTCTATGTCTTTGCAACT
genomic: TCAACAACAAAAGTGGGAGCGAATTTGGTGGGGGCACACTTCATATTAAGgtttgggttt ... acttgttcagGTTAGTAGTGCCCATAGTTGGACATGTATGGACCTTTATGTCTTTGCAACT
EST:
gi|161719634|gb|FC069410.1|FC069410EST: TCAACAACAAAAGTGGGAGCGAATTTGGTGGGGGCACACTTCATATTAAG GTTAGTAATGCCCATAGTTGGACATGTATGGACCTCTATGTCTTTGCAACT
genomic: TCAACAACAAAAGTGGGAGCGAATTTGGTGGGGGCACACTTCATATTAAGgtttgggttt ... acttgttcagGTTAGTAGTGCCCATAGTTGGACATGTATGGACCTTTATGTCTTTGCAACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccagcagaagaatagattatttttagctttaaaatgctactctttacttgttcagGTTAGTAGTGCCCATAGTTGGACATGTATGGACCTTTATGTCTTTGCAACTCCATACCAAGTGACATGGGATTACTACTTTTTGTCTCGGGAGCATACCA
ctctttacttgttc CT-rich tract
aagaatagattatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcttggaagcttcttgtattagtataatcatataccctaatatggccagcagaagaatagattatttttagctttaaaatgctactctttacttgttcagGTTAGTAGTGCCCATAGTTGGACATGTATGGACCTTTATGTCTTTGCAACTCCATACCAAGTGACATGGGATTACTACTTTTTGTCTCGGGAGCATACCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - -cttcttg
- - - - - - - - - - - - - - - - -accctaa
- - - - - - - - - - - - - - - - - - - - tatggcc
- - - - - - - - - - - - - - - - - - - - - - - - - agaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taaaatg