Sequence
atgc intronic sequence ATGC exonic sequence...taaaaatagagccatgtataatgtctataacgtgtagattggtttgcttccaggtgtttagaccaccatttgctcactgcttttctttcgttgcatatagGTATATCTAATACTTGATGAGTTCATTCTTGCTGGAGAGCTCCAGGAAACAAGCAAGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g03340.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G052713_T01 (Zea mays), 3'ss of exon 4
------taaaaatagagccatgtataatgtctataacgtg-tagattggtttgcttccaggtgtttagaccaccatttgctcactgcttttctt-tcgttgcatatagGTATATCTAATACTTGATGAGTTCATTCTTGCTGGAGAGCTCCAGGAAACAAGCAAGAAG
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ctgcttttgctctttaatcttttgccttccttaaaccatactaaagtatctaactatcatttgt---ga-----atttgcttattgatcttttggctatctgctgtagGTTTACTTGATATTGGATGAGTTCATTCTTGCTGGAGAGCTTCAAGAAACAAGCAAAAGG
upper sequence: Vv04s0023g03340.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA14G40430.2 (Glycine max), 3'ss of exon 4
taaaaatagagccatgt--ataatgtctataacgtgtagattggtttgcttccaggtgtttagaccaccatttgctcac-tgcttttctttcgttgcatatagGTATATCTAATACTTGATGAGTTCATTCTTGCTGGAGAGCTCCAGGAAACAAGCAAGAAG
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gatcaccattaccatattgatcgtaccctcttcctttagatta--ttattactatttttttaatgtttc-cttactcatatagtttacccatatgtcttgaagGTCTATCTTATACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAG
upper sequence: Vv04s0023g03340.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G37730.1 (Glycine max), 3'ss of exon 4
taaaaatagagccatgtataatgtctataacgtgtagattggtttgcttccaggtgtttagaccaccatttgctcact-gcttttctttcgttgcatatagGTATATCTAATACTTGATGAGTTCATTCTTGCTGGAGAGCTCCAGGAAACAAGCAAGAAG-
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ccaagtgaagttcatgatcgtaatcctctttcttaagatta--ttattactatttcttttaatgtttccttactcatttagtttacctatatgtcttcaaggTCTATCTTATACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG
upper sequence: Vv04s0023g03340.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G47830.1 (Arabidopsis thaliana), 3'ss of exon 4
taaaaatagagccatgtataatgtctataacgtgtagattggtttgcttccaggtgtttagaccaccatttgctcactgcttttctttcgtt---gcatatagGTATATCTAATACTTGATGAGTTCATTCTTGCTGGAGAGCTCCAGGAAACAAGCAAGAAG
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--tatttgtgtttatatatgcagatgctacagtgtttctagatttgat-ctgtgtttgtactctaataattgctaactagttccctatgacttaaactgaaagGTGTACTTGATACTCGATGAGTTCATTCTTGCTGGGGAGCTCCAAGAAACAAGCAAAAGGMapped 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|110389725|gb|EC954585.1|EC954585EST: ATTTCTTCAGCAATGTGTGTGAGCTAGATTTGGTATTTAACTTTCACAAG GTATATCTAATACTTGATGAATTCATTCTTGCTGGAGAGCTCCAGGAAACA
genomic: ATTTCTTCAGCAATGTGTGTGAGCTAGATTTGGTATTTAACTTTCACAAGgttagtgcaa ... ttgcatatagGTATATCTAATACTTGATGAGTTCATTCTTGCTGGAGAGCTCCAGGAAACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcttccaggtgtttagaccaccatttgctcactgcttttctttcgttgcatatagGTATATCTAATACTTGATGAGTTCATTCTTGCTGGAGAGCTCCAGGAAACAAGCAAGAAG
tgctcac putative branch site (score: 2)
ctgcttttctttcgtt CT-rich tract
ttttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaaaatagagccatgtataatgtctataacgtgtagattggtttgcttccaggtgtttagaccaccatttgctcactgcttttctttcgttgcatatagGTATATCTAATACTTGATGAGTTCATTCTTGCTGGAGAGCTCCAGGAAACAAGCAAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
-aaaaata
- - - - - -ccatgta
- - - - - - - - - - - - - - - - - - - - - - -gcttcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -accacca