Sequence
atgc intronic sequence ATGC exonic sequencegtatgatgcttcaaagtgactgtgtaaccgtgtattttctgcatgtggacaatcctgatacaatcaatacacagGCGTTACCAGATGATTTGAAGACAAAGCTCAGTATTGATGATGATTTGGCTTCAAGCCCTAAAGAAGCACTATCCCGGGCCTCTGCAGATAGGAGAATGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g04650.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os02g47860.2 (Oryza sativa), 3'ss of exon 8
---------------------gtatg-atgcttcaaa----gtgactgtgtaaccg--tgtattttctgcatgtgga-caatcctgatacaatcaatacacagGCGTTACCAGATGATTTGAAGACAAAGCTCAGTATTGATGATGATTTGGCTTCAAGCCCTAAAGAAGCACTATCCCGGGCCTCTGCAGATAGGAGAATGA
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gtatgtatttgataattatatatatacacacttctcaccttattactagagcactagttgtatttcttagttttggggtggtttcaaataagtttacatgcagGCATTACCAGAAGATCTCAAGACAAAGCTCAGCATTGATGATGAGCTGGTTTCAAGTCCAAAAGAGGCCCTTTCTCGGGTTTCTGCTGATAAGAGAAACA
upper sequence: Vv17s0000g04650.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G147430_T02 (Zea mays), 3'ss of exon 8
------------------gtatgatgctt-caaagtgactgtgtaaccgt-----gtattttctgcatgtggacaatcctgatacaatcaatacacagGCGTTACCAGATGATTTGAAGACAAAGCTCAGTATTGATGATGATTTGGCTTCAAGCCCTAAAGAAGCACTATCCCGGGCCTCTGCAGATAGGAGAATGA
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gtatgtatattttgttagttatgttgcttacactgtatatttgcatttgttctagttgttttgtttatttcattggttgt-atctgactgctatgcagGCGTTACCAGAAGATTTGAAGACAAAGCTCAGCATCGACGATGAGCTGGTCTCAAGTCCAAAGGAAGCCTTTTCCCGTGTTTCGGCTGATCGGAGAAACA
upper sequence: Vv17s0000g04650.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA17G09080.1 (Glycine max), 3'ss of exon 8
gtatgatgcttcaaagtgactgtg--taaccgtgtat-tttctgcatgtggacaatcctgatacaatcaatacacagGCGTTACCAGATGATTTGAAGACAAAGCTCAGTATTGATGATGATTTGGCTTCAAGCCCTAAAGAAGCACTATCCCGGGCCTCTGCAGATAGGAGAATGA
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gtatgagccatcatacaaccttttgcttgttgtttacatttttgtatgctga-atcgctgatctgatcaaactgcagGCATTGCCAGATGATCTTAAGACAAAACTCAGCATAGATGATGACTTGGTTTCAAGCCCCAAAGAAGCCCTTTCCAGAGCTTCTGCAGATAGGAGAATGA
upper sequence: Vv17s0000g04650.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G07610.1 (Glycine max), 3'ss of exon 9
gtatgatgcttcaaagtgactgtg--taaccgtgtattttctgcatgtggacaatcctgatacaatcaatacacagGCGTTACCAGATGATTTGAAGACAAAGCTCAGTATTGATGATGATTTGGCTTCAAGCCCTAAAGAAGCACTATCCCGGGCCTCTGCAGATAGGAGAATGA
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gtatgagccatcatacaaccttttgcttgttgtttacatgttgtatactga--atagtgatctgatcaaactgcagGCATTGCCAGATGATCTTAAGACAAAACTCAGCATAGATGATGACTTGGTTTCAAGCCCCAAAGAAGCCCTTTCCAGAGCTTCTGCAGATAGGAGAATGAMapped 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|71865288|gb|DT014343.1|DT014343EST: GCACATATATAGAACACATTCAGCTGGAGAAGCTTGTGAATGATGTTATG GCGTTACCAGATGATTTGAAGACAAAGCTCAGTATTGATGATGATTTGGCT
genomic: GCACATATATAGAACACATTCAGCTGGAGAAGCTTGTGAATGATGTTATGgtatgatgct ... caatacacagGCGTTACCAGATGATTTGAAGACAAAGCTCAGTATTGATGATGATTTGGCT
EST:
gi|110423731|gb|EC990082.1|EC990082EST: GCACATATATAGAACACATTCAGCTGGAGAAGCTTGTGAATGATGTTATG GCGTTACCAGATGATTTGAAGACAAAGCTCAGTATTGATGATGATTTGGCT
genomic: GCACATATATAGAACACATTCAGCTGGAGAAGCTTGTGAATGATGTTATGgtatgatgct ... caatacacagGCGTTACCAGATGATTTGAAGACAAAGCTCAGTATTGATGATGATTTGGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgtgtaaccgtgtattttctgcatgtggacaatcctgatacaatcaatacacagGCGTTACCAGATGATTTGAAGACAAAGCTCAGTATTGATGATGATTTGGCTTCAAGCCCTAAAGAAGCACTATCCCGGGCCTCTGCAGATAGGAGAATGA
tcctgat putative branch site (score: 3)
tgtatttt 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
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gtatgatgcttcaaagtgactgtgtaaccgtgtattttctgcatgtggacaatcctgatacaatcaatacacagGCGTTACCAGATGATTTGAAGACAAAGCTCAGTATTGATGATGATTTGGCTTCAAGCCCTAAAGAAGCACTATCCCGGGCCTCTGCAGATAGGAGAATGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA