Sequence
atgc intronic sequence ATGC exonic sequence...taatttatcaaagttgagtcagactcattagttgactaccagttatagaaagcaggactctctctcccctggattaacatgcttttgacatgaaatgcagGTAACCCAAGGGTGACTCCTGAGGTCACAAGGGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAACTTATACTATTCCCAGATAGAGGATCTTATGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g55350.1 (Oryza sativa), 3'ss of exon 6
taatttatcaaagttgagtcagactcattagttgactaccagttatagaaagcaggactctctctcccctggattaacatgcttttgacatgaaatgcagGTAACCCAAGGGTGACTCCTGAGGTCACAAGGGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAACTTATACTATTCCCAGATAGAGGATCTTATGTT
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-------------gtatgttacatctatcatatca-tgtttgcaacatagttaattaattgtgaaattatggttt----taatattgatgtggactacagGAAATCCAAGAGTCACACCAGAGGTTACAAGGGACGTATGCCTGTTAGCTAGAATGATGGCTGCTAACTTATACTATGCACAGATAGAGGATCTGATGTT
upper sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os08g27840.1 (Oryza sativa), 3'ss of exon 4
taatttatcaaagttgagtcagactcattagttgactaccagttatagaaagcaggactctctctcccctggattaacatgcttttgacatgaaatgcagGTAACCCAAGGGTGACTCCTGAGGTCACAAGGGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAACTTATACTATTCCCAGATAGAGGATCTTATGTT
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--------------------gtatgcaaaggatggcttttgacttctgtatagttcagttcttgtgcatttaataattttgtgcattgcaccaatt-tagGAAATCCAAGAGTGACACCAGAAGTCACAAGGGATGTATGCTTGCTTGCTAGAATGATGGCTTCAAATTTATACTGCTCGCAAATTGAGGATCTCATGTT
upper sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G110714_T01 (Zea mays), 3'ss of exon 4
--------taatttatcaaagttgagtcagactcattagttgac-taccagttatagaaagcaggactctctctcccctgg-attaacatgcttttgacatgaaat-----gcagGTAACCCAAGGGTGACTCCTGAGGTCACAAGGGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAACTTATACTATTCCCAGATAGAGGATCTTATGTT
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gtacatagcattctctctccctt-atttggatagtatatttgatgtgctgaatcatgcaactgtagttcacaagaaagaagtgcaaatataactctgaactgatgtccatgacagGGAATCCAAGAGTCACGCCAGAGGTTACAAGGGATGTATGCTTGTTGGCTAGAATGATGGCTGCTAATTTGTATAATGCCCAGATAGAAGACCTGATGTT
upper sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G34560.1 (Glycine max), 3'ss of exon 5
taatttatcaaagttgag-tcagactcattagttgactaccagttatagaaagcaggactctctctcccctggattaacatgcttttgacatgaaatgcagGTAACCCAAGGGTGACTCCTGAGGTCACAAGGGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAACTTATACTATTCCCAGATAGAGGATCTTATGTT
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gtattagtcttatttgtgattttaaaaaatagtgta-tatta-tcgtagtatactggacaaatggaatgatatgcaaattttatgttccaatatgatacagGTAATCCAAGAGTAACTCCTGAAGTGACAAGGGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAATTTGTATTATTCCCAGATAGAAGATCTTATGTT
upper sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA12G35840.1 (Glycine max), 3'ss of exon 4
taatttatcaaagttg-agtcagactcattagttgactaccagttatagaaagcaggactctctctcccctggattaacatgcttttgacatgaaatgcagGTAACCCAAGGGTGACTCCTGAGGTCACAAGGGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAACTTATACTATTCCCAGATAGAGGATCTTATGTT
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gtattagtcttatttgtgattaaaaaaaatagtgta-tatta-tcatagtacactggacata--------tggaatgatatgcaaattaaatatggtacagGTAATCCAAGAGTAACTCCTGAAGTGACAAGGGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAATTTGTATTATTCCCAGATAGAAGATCTTATGTT
upper sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G09810.1 (Glycine max), 3'ss of exon 5
taatttatcaaagttgagtcagactcattagttgactaccagttatagaaagcaggactctctctcccctggattaacatgcttttgac--------atgaaatgcagGTAACCCAAGGGTGACTCCTGAGGTCACAAGGGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAACTTATACTATTCCCAGATAGAGGATCTTATGTT
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------actgctagctaggtagtttcagttatttactaaaaggtatcatgattctg--ttatgcttctcggaaagtgtgtgtgcctaactatgttcaatatgatgcagGCAATCCAAGAGTAACTCCTGAAGTGACCAGAGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAACTTGTACTACTCCCAGATAGAGGATCTTATGTT
upper sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA06G33380.1 (Glycine max), 3'ss of exon 4
taat-ttatcaaagttgagtcag--actcattagttgac-taccagttatagaaagcaggactctctctcccctggattaacatgcttttgacatgaaatgcagGTAACCCAAGGGTGACTCCTGAGGTCACAAGGGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAACTTATACTATTCCCAGATAGAGGATCTTATGTT
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-actgctacctaggttatttcagttacttattaaaaggtgtcatgattctattaagcttctccgaaagtgtgtgtgtctaac-tatgttcaatatga--tgcagGCAATCCAAGAGTAACTCCAGAAGTGACAAGAGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAACTTGTACTACTCCCAGATAGAGAATCTTATGTTMapped 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|110699775|gb|EE077068.1|EE077068EST: CTTGGATGGGTGGTGATCGTGATG GTAACCCAAGGGTGACTCCTGAGGTCACAAGGGATGTTTGCTTATTGGCTA
genomic: CTTGGATGGGTGGTGATCGTGATGgtatgagtct ... tgaaatgcagGTAACCCAAGGGTGACTCCTGAGGTCACAAGGGATGTTTGCTTATTGGCTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagaaagcaggactctctctcccctggattaacatgcttttgacatgaaatgcagGTAACCCAAGGGTGACTCCTGAGGTCACAAGGGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAACTTATACTATTCCCAGATAGAGGATCTTATGTT
attaacat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taatttatcaaagttgagtcagactcattagttgactaccagttatagaaagcaggactctctctcccctggattaacatgcttttgacatgaaatgcagGTAACCCAAGGGTGACTCCTGAGGTCACAAGGGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAACTTATACTATTCCCAGATAGAGGATCTTATGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - actacca
- - - - - - - - - - - - - - - - - - - - - - - -gaaagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acatgct