Sequence
atgc intronic sequence ATGC exonic sequence...ttgttctctttatccttttctataagaaggaagactcttgtttccttgaattacatgttttatgctagaaaatgactacttaccataacctacattatagGAAGGGTGCTCCAACAACTCCACTAGTCACCATTGCCGTGACAAAGCTAGTGGCTGAAGTTCTTGAGAAAAACAACTTGCCAGGTGCAATATTCACCTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g00900.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G130440_T02 (Zea mays), 3'ss of exon 7
-ttgttctctttatcc-----ttttctataagaaggaagactcttgtttccttgaattacatgttttatgctagaaaatgactacttaccataacctacattatagGAAGGGTGCTCCAACAACTCCACTAGTCACCATTGCCGTGACAAAGCTAGTGGCTGAAGTTCTTGAGAAAAACAACTTGCCAGGTGCAATATTCACCTCT
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tctgttcaacatactcaccagttctgttttagtggcaataaacttgctcagt---accgcaggg---aggctgttactttgtctaatgttgttgcgattcttacagGAAAGGTGCTCCAACAACTCCACTGATCACTATTGCAATGACAAAAATAGTGGCTAGTGTATTGGAGAAGAACAACTTGCCAGGCGCAATTTTTACATCT
upper sequence: Vv11s0016g00900.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA09G08150.2 (Glycine max), 3'ss of exon 6
ttgttctctttatccttttctataagaaggaagactcttgtttcct-tgaattacatgttttatgctagaaaatgactacttaccataacctacattatagGAAGGGTGCTCCAACAACTCCACTAGTCACCATTGCCGTGACAAAGCTAGTGGCTGAAGTTCTTGAGAAAAACAACTTGCCAGGTGCAATATTCACCTCT
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gtgatatatgttcacttgtcagattcttgagtgtttcaaattttcaatggcaatcatgttatcttttt-aatatatgttttttctacggcatccattaaagGAAGGGTGCTCCAACAACTCCTTTGATAACTATTGCTGTGACAAAGCTAGTAGCTGAAGTTCTTGAGAGGAACAAATTACCTGGTGCAATATTCACCTCT
upper sequence: Vv11s0016g00900.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA15G19670.1 (Glycine max), 3'ss of exon 7
ttgttctctttatcctttt-ctataagaaggaagactcttgtttccttgaattacatgttttatgctagaaaatgactacttaccataacctacattatagGAAGGGTGCTCCAACAACTCCACTAGTCACCATTGCCGTGACAAAGCTAGTGGCTGAAGTTCTTGAGAAAAACAACTTGCCAGGTGCAATATTCACCTCT
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-tgtgatatatgttcacttgccagattcttgagtgtttcaaattttcaatgacaatcgtgttatctttttaatatatgtttttctatgacatccattaaagGAAGGGTGCTCCAACAACTCCTTTGATAACTATTGCTGTGACAAAGCTAGTAGCTGAAGTTCTTGAGAGGAACAAATTACCTGGTGCAATATTCACCTCT
upper sequence: Vv11s0016g00900.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G54100.1 (Arabidopsis thaliana), 3'ss of exon 8
--------ttgttctctttatccttttctataagaaggaagactcttgtttccttgaattacatgttttatgctagaaaatgactacttaccataacctacattatagGAAGGGTGCTCCAACAACTCCACTAGTCACCATTGCCGTGACAAAGCTAGTGGCTGAAGTTCTTGAGAAAAACAACTTGCCAGGTGCAATATTCACCTCT
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gtttcataatagtaacacaatattaatct-tgacaatgaaaatttgtattggtttgattggtgtagctaatacttaa-------tacatcatacatgtgattccacagGAAAGGTGCTCCAACTACACCGTTAATAACTATCGCAATGACCAAGCTAGTAGCTGAAGTTTTAGAGAAAAACAACTTACCCGGTGCCATTTTTACGGCCMapped 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|110701993|gb|EE080197.1|EE080197EST: GATGGAATGCCTGCCTCGCATTANTATGTGGTAATTGTGTTGTGTG GAAAGGTGCTCCA-CAACTCCACTAGTCACC
genomic: GATGGAATGCCTGCCTCGCATTAGTATGTGGTAATTGTGTTGTGTGgtaagttgta ... tacattatagGAAGGGTGCTCCAACAACTCCACTAGTCACC
EST:
gi|161711973|gb|FC060028.1|FC060028EST: GATGGAATGCCTGCCTCGCATTAGTATGTGGTAGTTGTGTTGTGTG GAAGGGTGCTCCAACAACTCCACTAGTCACCATTGCCGTGACAAAGCTAGT
genomic: GATGGAATGCCTGCCTCGCATTAGTATGTGGTAATTGTGTTGTGTGgtaagttgta ... tacattatagGAAGGGTGCTCCAACAACTCCACTAGTCACCATTGCCGTGACAAAGCTAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgaattacatgttttatgctagaaaatgactacttaccataacctacattatagGAAGGGTGCTCCAACAACTCCACTAGTCACCATTGCCGTGACAAAGCTAGTGGCTGAAGTTCTTGAGAAAAACAACTTGCCAGGTGCAATATTCACCTCT
atgttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgttctctttatccttttctataagaaggaagactcttgtttccttgaattacatgttttatgctagaaaatgactacttaccataacctacattatagGAAGGGTGCTCCAACAACTCCACTAGTCACCATTGCCGTGACAAAGCTAGTGGCTGAAGTTCTTGAGAAAAACAACTTGCCAGGTGCAATATTCACCTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - -ataagaa
- - - - - - - - - - - - - - ggaagac
- - - - - - - - - - - - - - - - - - - - - - - - - - acatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cataacc