Sequence
atgc intronic sequence ATGC exonic sequence...aaatagtgtatgcatgcatggtttgcttctcccccctccccccccccccctttttcaaatgaagtacttgtctaatattgttaattcgaaaaaactgcagGATGAGAAGGAATTGCTGGAAAATAACTGTTGCCCTATGCACTTAAAGCCATGTGTTTTGAGGAAAGAAGATAACTACTTCTTTGCCCTGTCAAAGTATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g00810.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G029055_T02 (Zea mays), 3'ss of exon 3
------aaatagtgtatgcatgcatggtttgcttctcccccctccccccccccccctttttcaaatg-aagtacttgtctaatattgttaattcgaaaaaactgcagGATGAGAAGGAATTGCTGGAAAATAACTGTTGCCCTATGCACTTAAAGCCATGTGTTTTGAGGAAAGAAGATAACTACTTCTTTGCCCTGTCAAAGTATC
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tgttcgaagtacttttt-tgtgtgccatgtgcacctatatatatcaaccctctttttaatactactacaaatactgatgctttagtattgactgaacaaa------gGATGAAAAAGAGCTATTGGAGAACAATTGTTGCCCTGTGCATCTGAAGCCTTGTGTTGAAAGAAAAGAAGATAACTATTTCTTTGCCTTGTCAAAGTACC
upper sequence: Vv13s0019g00810.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G23250.1 (Glycine max), 3'ss of exon 3
--aaatagtgtatgcatgcatggtttgcttctcccccctccccccccccccctttttcaaatgaagtacttg-tctaatattgttaattcgaaaaaactgcagGATGAGAAGGAATTGCTGGAAAATAACTGTTGCCCTATGCACTTAAAGCCATGTGTTTTGAGGAAAGAAGATAACTACTTCTTTGCCCTGTCAAAGTATC
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tcggatcatttgaa-acttttgattgagatagtttacttactaagatttaccatcttagttttatgattttactttaaaaatgt--attgctatctgatgcagGATGAGAAGGAACTTCTTGATAATAATTGTTGTCCAGTTCACCTAAAGCCTTGTGTTTCAAGGAAAGAGGACAATTACTTTTTTGCACTGTCAAAATATC
upper sequence: Vv13s0019g00810.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G43550.1 (Glycine max), 3'ss of exon 3
aaatagtgtatgcatgcatggtttgcttctcccccctccccccccccccctttttcaaatgaagtacttgtctaatattgttaattcgaaaaaactgcagGATGAGAAGGAATTGCTGGAAAATAACTGTTGCCCTATGCACTTAAAGCCATGTGTTTTGAGGAAAGAAGATAACTACTTCTTTGCCCTGTCAAAGTATC
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tctgatcatttgaaacttttgattgagattgctgccttactaagatttaccatcctagtttcgtgattttactttaagaatatattgctctctgatgcagGATGAGAAGGAACTTCTTGATAATAATTGTTGTCCAGTTCACCTAAAGCCTTGTGTTTCAAGGAAAGAGGACAATTACTTTTTTGCACTGTCAAAATATC
upper sequence: Vv13s0019g00810.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G55400.1 (Arabidopsis thaliana), 3'ss of exon 2
aaatagtgtatgcatgcatggtttgcttctcccccctccccccccccccctttttcaaatgaagtacttgtctaatattgttaattcgaaaaaactgcagGATGAGAAGGAATTGCTGGAAAATAACTGTTGCCCTATGCACTTAAAGCCATGTGTTTTGAGGAAAGAAGATAACTACTTCTTTGCCCTGTCAAAGTATC
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-------gtttgattttgaaatttggaaaggtata-tatactttcttgcctgtgccacaagctttatgggtctgct-ttgtt--tttgaatt--ctgtagGATGAGAAAGAGTTGCTTGAAAACAATTGTTGCCCTGTCCATCAAATGCCATGTGTTGCAAGGAAAGAAGATAACTACTTCTTTGCTTTGTCGAAATATCMapped 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|71857108|gb|DT006163.1|DT006163EST: ACCGGGCTGATTATGAAGGACTTTATTGCATCAATTGTGAAGAGTATAAG GATGAGAAGGAATTGCTGGAAAATAACTGTTGCCCTATGCACTTAAAGCCA
genomic: ATCGGGCTGATTATGAAGGACTTTATTGCATCAATTGTGAAGAGTATAAGgtggtacctt ... aaaactgcagGATGAGAAGGAATTGCTGGAAAATAACTGTTGCCCTATGCACTTAAAGCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccccctttttcaaatgaagtacttgtctaatattgttaattcgaaaaaactgcagGATGAGAAGGAATTGCTGGAAAATAACTGTTGCCCTATGCACTTAAAGCCATGTGTTTTGAGGAAAGAAGATAACTACTTCTTTGCCCTGTCAAAGTATC
tgttaat putative branch site (score: 3)
taatattgttaattcg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaatagtgtatgcatgcatggtttgcttctcccccctccccccccccccctttttcaaatgaagtacttgtctaatattgttaattcgaaaaaactgcagGATGAGAAGGAATTGCTGGAAAATAACTGTTGCCCTATGCACTTAAAGCCATGTGTTTTGAGGAAAGAAGATAACTACTTCTTTGCCCTGTCAAAGTATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - -gcatgca
- - - - - - - - - tggtttg
- - - - - - - - - - - - - ttctccc
- - - - - - - - - - - - - - - - -ccctccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - aaatgaa