Sequence
atgc intronic sequence ATGC exonic sequencegtttactttcaattatacttggtgcttgtcaccttgggatatgttgcctatttttcttcaagattgaaactcatcacagaccccccataacaaaaaattttatttagGTTTATCAAGCTAGGCTTTGTCCTAGTGGTCAGGTTGTTGCTGTCAAAGTGCAGAGGCCTGGGGTTCAAGCTGCTATTTCCTTGGACATATTAATCTTGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g01620.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os04g54790.1 (Oryza sativa), 3'ss of exon 4
gtttactttcaattatacttggtgcttgtcaccttgggatatgttgcctattt--ttcttcaagattgaaactcatcacagaccccccataacaaaaaattttatt-tagGTTTATCAAGCTAGGCTTTGTCCTAGTGGTCAGGTTGTTGCTGTCAAAGTGCAGAGGCCTGGGGTTCAAGCTGCTATTTCCTTGGACATATTAATCTTGC
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----atgttgaacaattggtgaaa--tgaca----gtgatactctgtatagtgcattgtcagatattttcatctctggacgatataacatttcatattctactattgtagGTTTATCAGGCCAGGCTTCGTTCCAACAGGAAGGTTGTTGCTGTCAAAGTACAAAGACCTGGAGTTCAAGCAGCAATTTCCTTGGATATCTACATCTTGA
upper sequence: Vv18s0001g01620.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G305007_T02 (Zea mays), 3'ss of exon 3
gtttactttcaattatacttggtgcttgtcaccttgggatatgttgcctatttttcttcaagattgaaactc--atcacagaccccccataacaaaaaattttatttagGTTTATCAAGCTAGGCTTTGTCCTAGTGGTCAGGTTGTTGCTGTCAAAGTGCAGAGGCCTGGGGTTCAAGCTGCTATTTCCTTGGACATATTAATCTTGC
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--------atgataaattcaaatattagtcaattcacacttcctagcatggacaaccgtggcatttcatctccagtgatacaatgttcaatttttcttacttt-tgtagGTTTACCAGGCTAGGCTCCGCTCCAGTGGGAAGATTGTTGCTGTCAAAGTACAAAGACCTGGAGTTCAAGCAGCAATTTCATTAGACATATATATCTTGA
upper sequence: Vv18s0001g01620.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G27500.1 (Glycine max), 3'ss of exon 4
----------------------gtttactttcaattatacttggtgcttgtcaccttgggatatgttgcctatttttcttcaagattgaaactcatcacagaccccccataacaaaaaattttatttagGTTTATCAAGCTAGGCTTTGTCCTAGTGGTCAGGTTGTTGCTGTCAAAGTGCAGAGGCCTGGGGTTCAAGCTGCTATTTCCTTGGACATATTAATCTTGC
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gttcatttatctggccattttggtgtgtttttt-tgctagtgactgcagagtttctgagaggacattcatgtctttttttttagattttaat--accttagaattggaacttctgtctctgaagcatagGTTTATCAAGCTAGGCTTCGCAAAACAGGACAGGTTGTTGCTGTTAAAGTGCAAAGACCAGGAGTTCAAGCAGCAATTTCCCTTGACATATTAATCTTGC
upper sequence: Vv18s0001g01620.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G71810.1 (Arabidopsis thaliana), 3'ss of exon 4
------------gtttactttcaattatacttgg-tgcttgtcaccttgggatat-gttgcctatttttcttcaagattgaaactcatcacagaccccccataacaaaaaattttatttagGTTTATCAAGCTAGGCTTTGTCCTAGTGGTCAGGTTGTTGCTGTCAAAGTGCAGAGGCCTGGGGTTCAAGCTGCTATTTCCTTGGACATATTAATCTTGC
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gtacgtgggaaagcatgttcttgatggtctaaagctgatcctaatgctagtttcttatttccaatctttatatgagagcttattctattatgtggatcctactctggtccacgtt--tcagGTATATCAAGCTAGGCTCCGTAGAAGTGGAAAGGTTGTTGCTGTCAAAGTGCAGCGCCCTGGTGTACGAGCTGCAATTGCTTTGGACACATTAATTCTTCMapped 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|352769365|gb|FQ471514.1|FQ471514EST: TGTTCTCAGAGATCTCTCCAGAGCCAGTGGCTGCAGCATCTCTTGGGCAG GTTTATCAAGCTAGGCTTTGTCCTAGTGGTCAGGTTGTTGCTGTCAAAGTG
genomic: TGTTCTCAGAGATCTCTCCAGAGCCAGTGGCTGCAGCATCTCTTGGGCAGgtttactttc ... ttttatttagGTTTATCAAGCTAGGCTTTGTCCTAGTGGTCAGGTTGTTGCTGTCAAAGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcttcaagattgaaactcatcacagaccccccataacaaaaaattttatttagGTTTATCAAGCTAGGCTTTGTCCTAGTGGTCAGGTTGTTGCTGTCAAAGTGCAGAGGCCTGGGGTTCAAGCTGCTATTTCCTTGGACATATTAATCTTGC
ccataac putative branch site (score: 3)
ttttattt putative PPT
ataacaaaaaatttta 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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gtttactttcaattatacttggtgcttgtcaccttgggatatgttgcctatttttcttcaagattgaaactcatcacagaccccccataacaaaaaattttatttagGTTTATCAAGCTAGGCTTTGTCCTAGTGGTCAGGTTGTTGCTGTCAAAGTGCAGAGGCCTGGGGTTCAAGCTGCTATTTCCTTGGACATATTAATCTTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT