Sequence
atgc intronic sequence ATGC exonic sequencegtagtctgatgctatcattgatgctaatagtgattatttgtctgttactagtagcaagcttccaaactgattttgcagGCAGCTATTGAGGAAGGTGTTGTAGTTGGTGGTGGCTGTAGCCTTTTGCGACTATCTTTAAAAGTGGATGGCATCAAAGAACTTTTGGACAATGAAGAGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0010g00920.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: 13113.m00214 (Oryza sativa), 3'ss of exon 9
gtagtctgatgctatcattgatgctaata-gtgattatttgtctgttactag-------tagcaagcttccaaactgattttgcagGCAGCTATTGAGGAAGGTGTTGTAGTTGGTGGTGGCTGTAGCCTTTTGCGACTATCTTTAAAAGTGGATGGCATCAAAGAACTTTTGGACAATGAAGAGC
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gtacttctacactatctacatacatggtatgtaagtgtttgtgaactaaaaggtccgtttgttaagcacagttttggatatttcagGCAGCTATTGAGGAAGGAGTTGTGATAGGTGGTGGATGTAGCCTATTAAGATTATCCATGAAGATTGATAGAATTAAGGAATCATTGGATAATATGGAGC
upper sequence: Vv01s0010g00920.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G042253_T01 (Zea mays), 3'ss of exon 8
gtagtctgatgctatcattgatgctaatagtgattatttgtctgttactagtagc----aagctt---ccaaact-----gattttgcagGCAGCTATTGAGGAAGGTGTTGTAGTTGGTGGTGGCTGTAGCCTTTTGCGACTATCTTTAAAAGTGGATGGCATCAAAGAACTTT---TGGACAATGAAGAGC
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gtaccttgat-caatcctatatacttcatttcatgtgttgtctgcaactacaagtttcaaagtttgaaccaactttttgggataattcagGCAGCTATTGAGGAAGGTGTTGTAGTTGGTGGTGGATGTAGCCTACTAAGACTGTCAGAGAAGATTGACGCAATCAAGGAATCATCGTTGGATAATATAG---
upper sequence: Vv01s0010g00920.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA02G13980.1 (Glycine max), 3'ss of exon 9
gtagtctgatgctatcattgatgctaatagtgattatttgt--ctgttactagtagcaagcttccaaactgattttgcagGCAGCTATTGAGGAAGGTGTTGTAGTTGGTGGTGGCTGTAGCCTTTTGCGACTATCTTTAAAAGTGGATGGCATCAAAGAACTTTTGGACAATGAAGAGC
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---gtatttctttttctttgct-ctaacaa-gatgatttgcagtaatttatatggctaagcttcttag--aacatggcagGCTGCAATCGAGGAAGGTGTAGTGGTCGGTGGTGGCTGTAGCCTTTTAAGACTATCTCAAAAGGTGGATGGCATAAAAAAACTACTGGACAATGAAGAAC
upper sequence: Vv01s0010g00920.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA01G09520.1 (Glycine max), 3'ss of exon 9
gtagtctgatgctatcattgatgctaatagtgattatttgtctgttact--agtagc-aagcttccaaactgattttgcagGCAGCTATTGAGGAAGGTGTTGTAGTTGGTGGTGGCTGTAGCCTTTTGCGACTATCTTTAAAAGTGGATGGCATCAAAGAACTTTTGGACAATGAAGAGC
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---gtatttctttttccttagctctaacaa-gatgatttg-ctgtaatttaaatggctaagattcttag--aacaaggcagGCCGCAATCGAGGAAGGTGTAGTAGTTGGTGGTGGCTGTTGCCTTTTAAGACTATCCCAAAAGGTGGATGGCATAAAAAAACTCCTGGAAAATGAAGAACMapped 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|349815420|gb|FQ400575.1|FQ400575EST: AGCTGAAAGATAAACAATTGAGGATTGAAGATGCTGTGAATGCAACTAAG GCAGCTATTGAGGAAGGTGTTGTAGTTGGTGGTGGCTGTAGCCTTTTGCGA
genomic: AGCTGAAAGATAAACAATTGAGGATTGAAGATGCTGTGAATGCAACTAAGgtagtctgat ... gattttgcagGCAGCTATTGAGGAAGGTGTTGTAGTTGGTGGTGGCTGTAGCCTTTTGCGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaatagtgattatttgtctgttactagtagcaagcttccaaactgattttgcagGCAGCTATTGAGGAAGGTGTTGTAGTTGGTGGTGGCTGTAGCCTTTTGCGACTATCTTTAAAAGTGGATGGCATCAAAGAACTTTTGGACAATGAAGAGC
tgattattt 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
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gtagtctgatgctatcattgatgctaatagtgattatttgtctgttactagtagcaagcttccaaactgattttgcagGCAGCTATTGAGGAAGGTGTTGTAGTTGGTGGTGGCTGTAGCCTTTTGCGACTATCTTTAAAAGTGGATGGCATCAAAGAACTTTTGGACAATGAAGAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA