Sequence
atgc intronic sequence ATGC exonic sequencegtaattcttcgaacaaaatcaatttctttaatggaatcattttaattctattgaataatgtgtattaattattttcatatttctttttctggttttcctattgtagATGGTCAGCAATTGCTTCCCACCTTCCTGGACGGACCGACAATGAAATCAAGAATTTCCGGAACACCCATCTTAAGAAGAAGCTGATTCAGATGGGTTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0078g00480.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G159547_T01 (Zea mays), 3'ss of exon 2
gtaattcttcgaacaaaatcaatttctttaatggaatcattttaattctattgaataatgtgtatta-attattttcatatttctttttctggttttcctattgtagATGGTCAGCAATTGCTTCCCACCTTCCTGGACGGACCGACAATGAAATCAAGAATTTCCGGAACACCCATCTTAAGAAGAAGCTGATTCAGATGGGTTTC
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--gctagtttgtttcactctaacttcaataactcgtatttttgacttgtac---gtagtgcatgctatgctaatccagtgtcaactgttgtcatggtcaaacc--agATGGTCAGCTATCGCAAAGCACCTCCCTGGGCGGACTGATAACGAGATCAAGAATTTCTGGAACACGCACCTGAAGAAGAAGCTCATCCAGATGGGCTTC
upper sequence: Vv11s0078g00480.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G65230.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaattcttcgaacaaaatcaatttctttaatggaatcattttaattctattgaataatgtgtattaattattttca-tatttctttttctggttttcctattgtagATGGTCAGCAATTGCTTCCCACCTTCCTGGACGGACCGACAATGAAATCAAGAATTTCCGGAACACCCATCTTAAGAAGAAGCTGATTCAGATGGGTTTC
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-----------gtaagaacccttctgattcttgatattatctgggattttttt--tgctttgta--acttatcctaaatgttactggtgatgatttatata----agGTGGTCAATGATTGCAAGCCACTTACCTGGACGAACTGACAATGAGATCAAGAATTTCTGGAATACTCATTTGAAGAAAAAGCTGATTCAGATGGGTTTT
upper sequence: Vv11s0078g00480.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G10280.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaattcttcgaacaaaatcaatttctttaatggaatcattttaattctattgaataatgtgtattaattattttcatatt--tctttttctggttttcctattgta-gATGGTCAGCAATTGCTTCCCACCTTCCTGGACGGACCGACAATGAAATCAAGAATTTCCGGAACACCCATCTTAAGAAGAAGCTGATTCAGATGGGTTTC
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gtaattaatcttgtgatgattgttttgatgttttagtcaac--ggttttgtt------tgtgtaccagattatcttatactgattgcttatgaatgatgatgttataagGTGGTCAACGATTGCGAATCAGTTACCAGGGAGAACAGATAACGAGATCAAGAATTTCTGGAACACTCATTTGAAGAAGAAGCTGATTCAGATGGGTTTTMapped 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|161714725|gb|FC062680.1|FC062680EST: CGAGAAGAAGAGGAGACAATTCTGAATCTCCATTCTATCCTTGGCAACAA ATGGTCAGCAATTGCTTCCCACCTTCCTGGACGGACCGACAATGAAATCAA
genomic: CGAGAAGAAGAGGAGACAATTCTGAATCTCCATTCTATCCTTGGCAACAAgtaattcttc ... cctattgtagATGGTCAGCAATTGCTTCCCACCTTCCTGGACGGACCGACAATGAAATCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaataatgtgtattaattattttcatatttctttttctggttttcctattgtagATGGTCAGCAATTGCTTCCCACCTTCCTGGACGGACCGACAATGAAATCAAGAATTTCCGGAACACCCATCTTAAGAAGAAGCTGATTCAGATGGGTTTC
tattaat putative branch site (score: 2)
ttttcatatttctttt putative PPT
aatgtgtattaattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattcttcgaacaaaatcaatttctttaatggaatcattttaattctattgaataatgtgtattaattattttcatatttctttttctggttttcctattgtagATGGTCAGCAATTGCTTCCCACCTTCCTGGACGGACCGACAATGAAATCAAGAATTTCCGGAACACCCATCTTAAGAAGAAGCTGATTCAGATGGGTTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG