Sequence
atgc intronic sequence ATGC exonic sequence...tagtttgctttctgtttgctttgtttaggggattgtgaatgcataagtgcttgcttgtgtatgggagaatctagggcactcatttgatgttgttatgcagGAGCAAGATATGAAATTGTCTGAGCTAGAGTCTGAGAACCGGAAGATGAAAGTGGAACTTGAGGAGTTCAGGACAGAGGCAACTCATCTAAAGAATCAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g03970.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G011219_T02 (Zea mays), 3'ss of exon 2
-tagtttgctttctgtttgctttgtttaggggattgtgaatgcataagtgcttgcttgtgtatgggagaatctagggcactcatttgatgttgttatgcagGAGCAAGATATGAAATTGTCTGAGCTAGAGTCTGAGAACCGGAAGATGAAAGTGGAACTTGAGGAGTTCAGGACAGAGGCAACTCATCTAAAGAATCAAC
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tttgcttgatcttgaatcagtttatctaacaagaggcttgtctgaatatgataggtgggtttaataaacaattctagtgttaatgatctatt-tcatgcagGATCAAGACCAGAAATTGTCTGAACTGGAGACTGAGAACCGTAAGATGAAACTAGAGCTTGAAGAATACCGTGCTGAAGCTGCACACTTGAAGAACCAGC
upper sequence: Vv17s0000g03970.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G09890.2 (Glycine max), 3'ss of exon 3
--tagtt-tgctttctgtttgctttgtttaggggattgtgaatgcataagtgcttgcttgtgtatgggagaatctagggcactcatttgatgttgttatgcagGAGCAAGATATGAAATTGTCTGAGCTAGAGTCTGAGAACCGGAAGATGAAAGTGGAACTTGAGGAGTTCAGGACAGAGGCAACTCATCTAAAGAATCAAC
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gatacttgtgtgcattggtgcttatattttatgcatgtagggaaaccatgtgcatatttttatttgcttgttcct---gttctgatatgttttcattgtgcagGAGCAAGATCTCAAGATATCTGAGCTTGAATCTGAAAACCGGAAAATGAAAGTTGAGCTTGAGGAGTTCAGGACAGAGGCAACTCACTTGAAGAATCAGC
upper sequence: Vv17s0000g03970.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G31920.1 (Glycine max), 3'ss of exon 4
--tagtt-tgctttctgtttgctttgtttaggggattgtgaatgcataagtgcttgcttgtgtatgggagaatctagggcactcatttgatgttgttatgcagGAGCAAGATATGAAATTGTCTGAGCTAGAGTCTGAGAACCGGAAGATGAAAGTGGAACTTGAGGAGTTCAGGACAGAGGCAACTCATCTAAAGAATCAAC
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gatacttgtgtggattagtgcttatattttatgcatgtagggaaaccatgtgcatagttacatttgcttg---ttcatgttctgatgtgttttcattgtgcagGAGCAAGATCTCAAGATATCTGAGCTTGAATCTGAAAACCGGAAAATGAAAGTTGAGCTTGAGGAGTTCAGGACAGAGGCAACTCACTTGAAGAATCAGC
upper sequence: Vv17s0000g03970.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G18480.1 (Arabidopsis thaliana), 3'ss of exon 3
tagtttgctttctgtttgctttgtttaggggattgtgaatgcataagtgcttgcttgtgtatgggagaatctagggcactcatttgatgttgttatgcagGAGCAAGATATGAAATTGTCTGAGCTAGAGTCTGAGAACCGGAAGATGAAAGTGGAACTTGAGGAGTTCAGGACAGAGGCAACTCATCTAAAGAATCAAC
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---gtaattatccacttatctaatgttaac-ataatagacacctaaagtc---ctttagcctgaga-----------accaactaattgctgtattccagGAGCAAGATCGTAAATTATCTGAAGTGGAATCTGAAAATCGAAAGATGAAAGTTGAACTTGAGGAGTTTAGGACAGAAGCGACTCATCTTAAAAATCAGCMapped 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|30301790|gb|CB978584.1|CB978584EST: AGAAACTTTATGAGGCTCCGGATCCTTATCCAGCTCTTGCTTCAATTGCT GAGCAAGATATGAAATTGTCTGAGCTAGAGTCTGAGAACCGGAAGATGAAA
genomic: AGAAACTTTATGAGGCTCCAGATCCTTATCCAGCTCTTGCTTCAATTGCTgtaagttcaa ... tgttatgcagGAGCAAGATATGAAATTGTCTGAGCTAGAGTCTGAGAACCGGAAGATGAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtgcttgcttgtgtatgggagaatctagggcactcatttgatgttgttatgcagGAGCAAGATATGAAATTGTCTGAGCTAGAGTCTGAGAACCGGAAGATGAAAGTGGAACTTGAGGAGTTCAGGACAGAGGCAACTCATCTAAAGAATCAAC
atttgat putative branch site (score: 5)
atttgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagtttgctttctgtttgctttgtttaggggattgtgaatgcataagtgcttgcttgtgtatgggagaatctagggcactcatttgatgttgttatgcagGAGCAAGATATGAAATTGTCTGAGCTAGAGTCTGAGAACCGGAAGATGAAAGTGGAACTTGAGGAGTTCAGGACAGAGGCAACTCATCTAAAGAATCAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - -tgctttc
- - - - - - - - tgctttg
- - - - - - - - - - - - - - - - - - gaatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cactcat