Sequence
atgc intronic sequence ATGC exonic sequence...ctatcacttctaacaagaaatttacgtgcaaataatatgtacataatgtcatctggactagctaattttcaggtctctttctttttgaactattgtctagGTTGATCTGGAACATAATCAGTATCGATCTTTTCAAGGGTTGACTTGCTTGATGCAAATCTCTACTAGGACTGAGGATTTTGTTGTTGATACACTAAAGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0056g01320.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA19G29260.1 (Glycine max), 3'ss of exon 2
--ctatcacttctaacaagaaatttacgtgcaaataatatgtacataatgtcatctggactagctaattttcaggtctctttctttttgaactattgtctagGTTGATCTGGAACATAATCAGTATCGATCTTTTCAAGGGTTGACTTGCTTGATGCAAATCTCTACTAGGACTGAGGATTTTGTTGTTGATACACTAAAGC
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atttaattattgtcccagtattctctcttttagatacttctcctgtccctttctttc-attatattcttttgacatttttatcttgacgtggaat-gttaagGTGGATTTGGAACATAATCATTATCGGTCTTTCCAAGGTTTGACTTGCTTGATGCAAATCTCAACCAGGACTGAAGATTTTGTTATAGATACTCTGAAGG
upper sequence: Vv08s0056g01320.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G24130.1 (Glycine max), 3'ss of exon 3
-------ctatcacttctaacaagaaatttacgtgcaaataatatgtacataatgtcatctggactagctaattttcaggtctctttctttttgaactattgtctagGTTGATCTGGAACATAATCAGTATCGATCTTTTCAAGGGTTGACTTGCTTGATGCAAATCTCTACTAGGACTGAGGATTTTGTTGTTGATACACTAAAGC
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gctgatattcccctttcttgtagtcactccctccattact--tccattcattgcattcttttgacttatttatgtataa-tgacttgaagttgaaa----tgtatagGTTGATTTGGAACATAATCAATATCGGTCTTTCCAAGGTTTGACTTGCCTGATGCAAATTTCAACAAGGACTGAAGATTTTATTGTTGACACATTGAAAC
upper sequence: Vv08s0056g01320.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G13920.1 (Glycine max), 3'ss of exon 2
ctatcacttctaacaagaaatttacgtgca---aataatatgtacataatgtcatctggactagcta-attttcaggtctct----ttctttttgaactat--tgtctagGTTGATCTGGAACATAATCAGTATCGATCTTTTCAAGGGTTGACTTGCTTGATGCAAATCTCTACTAGGACTGAGGATTTTGTTGTTGATACACTAAAGC
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--gtaaaaacaaacatcacttcattgtgcattaagttttactttgaactttccttcttgacctattatgtgtgcaactatatataatgattcatgatttgtaatatttagGTTGATTTGGAGCATAATCAATATCGCACTTTCCAAGGCTTGACTTGCCTGATGCAAATCTCAACAAGGACTGAAGATTTTATTGTTGACACTTTGAAAC
upper sequence: Vv08s0056g01320.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G54440.2 (Arabidopsis thaliana), 3'ss of exon 2
-ctatcacttctaacaagaaatttacgtg-caaataatatgtacataatgtcatctggactagctaattttcaggtctctttctttttgaactattgtctagGTTGATCTGGAACATAATCAGTATCGATCTTTTCAAGGGTTGACTTGCTTGATGCAAATCTCTACTAGGACTGAGGATTTTGTTGTTGATACACTAAAGC
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aacttaatttatgagttaggatgatggtatctctttccttatttattatatcttgtttatc-gttcttgcttgagtttgttgtcttttattccttt-tgtagGTCGATCTGGAGCATAATCAGTATAGAACTTTTCAAGGATTAACATGCTTGATGCAAATCTCTACTAGAACCGAGGATTATATTGTTGATATATTCAAGC
upper sequence: Vv08s0056g01320.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G35910.1 (Arabidopsis thaliana), 3'ss of exon 2
----ctatcactt--ctaacaagaaatttacgtgcaaataatatgtacataatgtcatctggactagctaattttcaggtctctttctttttgaactattgtctagGTTGATCTGGAACATAATCAGTATCGATCTTTTCAAGGGTTGACTTGCTTGATGCAAATCTCTACTAGGACTGAGGATTTTGTTGTTGATACACTAAAGC
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ctctccttgattagataagccaaaaaaatatattcaagtttgagttgccaatgcttatttctccc--ctttctcttaagttttttgttttt---gctctt-tttagGTTGATCTGGAGCATAATCAGTATAGATCTTTTCAAGGATTGACATGCTTGATGCAAATTTCCACCAGAACAGAGGATTATATAGTTGATACATTTAAGCMapped 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|352774123|gb|FQ474646.1|FQ474646EST: GGGATTTGAAGGAACTAGCTGCTAAGTTGTGCTGTGTGAATGAATTTGCG GTTGATCTGGAACATAATCAGTATCGATCTTTTCAAGGGTTGACTTGCTTG
genomic: GGGATTTGAAGGAACTAGCTGCTAAGTTGTGCTGTGTGAATGAATTTGCGgtaaattttg ... tattgtctagGTTGATCTGGAACATAATCAGTATCGATCTTTTCAAGGGTTGACTTGCTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtcatctggactagctaattttcaggtctctttctttttgaactattgtctagGTTGATCTGGAACATAATCAGTATCGATCTTTTCAAGGGTTGACTTGCTTGATGCAAATCTCTACTAGGACTGAGGATTTTGTTGTTGATACACTAAAGC
agctaat putative branch site (score: 3)
taattttca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctatcacttctaacaagaaatttacgtgcaaataatatgtacataatgtcatctggactagctaattttcaggtctctttctttttgaactattgtctagGTTGATCTGGAACATAATCAGTATCGATCTTTTCAAGGGTTGACTTGCTTGATGCAAATCTCTACTAGGACTGAGGATTTTGTTGTTGATACACTAAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - acaagaa
- - - - - - - - - - - - - - caaataa
- - - - - - - - - - - - - - - - - -tatgtac