Sequence
atgc intronic sequence ATGC exonic sequence...gcttaattgcataggtttcagattgtgtgcagtggctatcaagaatctatgcattgagtttacaaacaatatatcatgtgaagtttcatggcttttgcagGTGAGGAAGCTTTAAAAAAACTTGAGGAAAGAGGAGTGGTCATACGTTTCGTAATTGGTCGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g06480.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G32180.1 (Glycine max), 3'ss of exon 4
-gcttaattgcataggtttcag-attgtgtgcagtggctatcaagaatctatgcattgagtttacaaacaatatatcatgtgaagtttcatgg---cttttgcagGTGAGGAAGCTTTAAAAAAACTTGAGGAAAGAGGAGTGGTCATACGTTTCGTAATTGGTCGGAG
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gatgggaatgtaaacacttgactattttgtaga-tggttatc-----tttttggttcaattgtatat-tactaagtcac-tgacatcttatcttctcttttctggcagGTGATGCCTTGAAAAAACTTGAAGAAAGAGGAGTGGTCATACGTTTTGTTATTGGTCGGAG
upper sequence: Vv04s0008g06480.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA14G14000.2 (Glycine max), 3'ss of exon 4
-gcttaattgcataggtttcag-attgtgtgcagtggctatcaagaatctatgcattgagtttacaaacaatatatcatgtgaagtt-tcatggcttttgcagGTGAGGAAGCTTTAAAAAAACTTGAGGAAAGAGGAGTGGTCATACGTTTCGTAATTGGTCGGAG
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gatgagaatgtaaacacttgactattttgtaga-tggttatc-----tttttggtttaattgtatattgcctagtcactgacatcttatcttctcttttctggcagGTGATGCCTTGAAAAAACTTGAAGAAAGAGGAGTGGTCATACGTTTTGTTATTGGTCGGAG
upper sequence: Vv04s0008g06480.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G32120.1 (Arabidopsis thaliana), 3'ss of exon 4
gcttaattgcataggtttcagattgtgtgcagtggctatcaagaatctatgcattgagtttacaaacaatatatcatgtgaagtttcatggcttttgcagGT-----GAGGAAGCTTTAAAAAAACTTGAGGAAAGAGGAGTGGTCATACGTTTCGTAATTGGTCGGAG
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gtagaatt--atcacccctgctttgtatg-gtcatttaacaatgtttcattaaaaatatttg-gtacaatatattaagtattctcttatgaaatttacttctatttagATGATGCTCTTAAAAAACTTGAGGAAAGAGGAGTTGTCATACGCTTTGTGATTGGTCGGAG
upper sequence: Vv04s0008g06480.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G25300.1 (Arabidopsis thaliana), 3'ss of exon 4
gcttaattgcataggtttcagattgtgtgcagtggctatcaagaatctatgcattgagtttacaaacaatatatcatgtgaagtttcatggcttttgcagGTGAGGAAGCTTTAAAAAAACTTGAGGAAAGAGGAGTGGTCATACGTTTCGTAATTGGTCGGAG
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----------gtagat--catgctgtg---attgaccattgaaaccgtttttttt----tcaatgttagcatttggtatggttactaactttttgttctaaagGTGATGCTTTGAGGAAACTTGAGGAAAGAGGAATTGTCATACGTTTTGTGATTGGTCGAAGMapped 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|71856228|gb|DT005283.1|DT005283EST: TGGTAGTCATTTGAAGCGAAATGTGTTTAGAGGGTCTTGGATGCCAAGAG GTGAGGAAGCTTTNNNNNNNCTTGAGGAAAGAGGAGTGGTCATACGTTTCG
genomic: TGGTAGTCATCTGAAGCGAAATGTGTTTAGAGGGTCTTGGATGCCAAGAGgtcagttgag ... gcttttgcagGTGAGGAAGCTTTAAAAAAACTTGAGGAAAGAGGAGTGGTCATACGTTTCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctatgcattgagtttacaaacaatatatcatgtgaagtttcatggcttttgcagGTGAGGAAGCTTTAAAAAAACTTGAGGAAAGAGGAGTGGTCATACGTTTCGTAATTGGTCGGAG
cttttgc CT-rich tract
tttacaaacaatatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcttaattgcataggtttcagattgtgtgcagtggctatcaagaatctatgcattgagtttacaaacaatatatcatgtgaagtttcatggcttttgcagGTGAGGAAGCTTTAAAAAAACTTGAGGAAAGAGGAGTGGTCATACGTTTCGTAATTGGTCGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - -tgcatag
- - - - - - - - - - - -tgtgtgc
- - - - - - - - - - - - - - - - - -ctatcaa
- - - - - - - - - - - - - - - - - - - - - - - ctatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaacaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgtga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttcatg