Sequence
atgc intronic sequence ATGC exonic sequence...cttagtatatgatggctgttcttatttccagaaccctactgaaaccatcagacaatgactagtaatttccaagttgctaaatttgtattcgtgctgacagGATTGTCAAATACGGCTGGAACATTTGCTGCCATTGTAGGAACAATTGGAGCTGGTTTCTTTGTTGAACTTGTGGGTTCTTTCCAAGGATTTCTGTTACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g06040.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g63290.2 (Oryza sativa), 3'ss of exon 7
cttagtatatgatggctgttcttatttccagaaccctactgaaaccatcagacaatgactagtaatttccaagttgctaaatttgtattcgtgctgacagGATTGTCAAATACGGCTGGAACATTTGCTGCCATTGTAGGAACAATTGGAGCTGGTTTCTTTGTTGAACTTGTGGGTTCTTTCCAAGGATTTCTGTTACT
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--------gtaataaatatgttcactcgttgc-ttttgttatgcactttattctgtcagaattaagtgtttaatcgatgattttttattc------acagGAATGTCAAATACAGCTGGAACATTTGCTGCCATTTTAGGAACTGTTGGAGCAGGTTTCTTTGTCGATCGGATGGGTTCTTTCCGTGGATTTTTAATATT
upper sequence: Vv06s0004g06040.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM5G856598_T02 (Zea mays), 3'ss of exon 7
cttagtatatgatggctgttcttatttccagaaccctactgaaaccatcagacaatgactagtaatttccaagttgctaaatttgtattcgtgctgacagGATTGTCAAATACGGCTGGAACATTTGCTGCCATTGTAGGAACAATTGGAGCTGGTTTCTTTGTTGAACTTGTGGGTTCTTTCCAAGGATTTCTGTTACT
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-gtactaactagtaaatatgctccttgtgttagctaatatatttccattttgttgcattaactaactttgat----ctacaattgtgctg----tgacagGAATGTCAAATACAGCTGGGACATTTGCTGCCATTCTAGGAACTATTGGAGCAGGGTTTTTTGTTGATAGGATGGGTTCTTTCCGTGGATTTTTGATATT
upper sequence: Vv06s0004g06040.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA14G36980.1 (Glycine max), 3'ss of exon 7
cttagtatatgatggctgttcttatttccagaaccctactgaaaccatcagacaatgactagtaatttccaagttgctaaatttgtattcgtgctgacagGATTGTCAAATACGGCTGGAACATTTGCTGCCATTGTAGGAACAATTGGAGCTGGTTTCTTTGTTGAACTTGTGGGTTCTTTCCAAGGATTTCTGTTACT
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tgaaatataagcaaaatctgctaggagctgagaaaatacttgtctatgtactttacaataagatctcttataatgaagacctcttgatttcttgttctagGAATATCAAATACGGCTGGAACATTGGCTGCTATAATTGGAACAGTAGGAGCTGGGTTTTTTGTTGAACTAGTTGGTTCCTTCCCAGGATTTCTGTTGCT
upper sequence: Vv06s0004g06040.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA02G38930.1 (Glycine max), 3'ss of exon 8
cttagtata--tgatggctgttcttatttcc-agaaccctactgaaaccatcagacaatgactagtaatttccaagttgctaaatttgtattcgtgctgacagGATTGTCAAATACGGCTGGAACATTTGCTGCCATTGTAGGAACAATTGGAGCTGGTTTCTTTGTTGAACTTGTGGGTTCTTTCCAAGGATTTCTGTTACT
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tgagatataagtaaaaactgctaggagttgagaaaatacttgtctatgtactttacaataa---gatctcttataatgaagacctcttgatttctttttctagGAATATCAAATACTGCTGGAACATTGGCTGCTATATTTGGAACAGTTGGAGCTGGGCTTTTTGTTGAGCTAGTTGGTTCCTTCCCAGGATTTCTGTTGCT
upper sequence: Vv06s0004g06040.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G46980.1 (Arabidopsis thaliana), 3'ss of exon 7
-----------------------------------------------------------------------cttagtatatgatggctgttcttattt---ccagaaccctactgaaaccatcagacaatgactagtaa----tttccaagttgctaaatttgtattcgtgctga--cagGATTGTCAAATACGGCTGGAACATTTGCTGCCATTGTAGGAACAATTGGAGCTGGTTTCTTTGTTGAACTTGTGGGTTCTTTCCAAGGATTTCTGTTACT
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gtatgctttctaattctcctttaatagacattggtttccagagtttcctattgttttatcaaacacatatagctaatttgtaccatctgagaaggaataagccttagactcaatcaaatttttgttgggaatctggaaacatttttccaaaaatctctaaccgtttctgcgctgttttagGAATGTGTCTTACTGCTGGGACATTAGCTGCGATAGTTGGCACAGTTGGAGCTGGTTTCTTTGTAGAACTATTGGGCTCCTTCCAGGGATTCATCCTTCTMapped 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|161720682|gb|FC070620.1|FC070620EST: GAGATTGCACCACAGTATTCTGGTGTTCTACATG GATTGTCAAATACGGCTGGAACATTTGCTGCCATTGTAGGAACAATTGGAG
genomic: GAGATTGCACCACAGTATTCTGGTGTTCTACATGgtacctttat ... gtgctgacagGATTGTCAAATACGGCTGGAACATTTGCTGCCATTGTAGGAACAATTGGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catcagacaatgactagtaatttccaagttgctaaatttgtattcgtgctgacagGATTGTCAAATACGGCTGGAACATTTGCTGCCATTGTAGGAACAATTGGAGCTGGTTTCTTTGTTGAACTTGTGGGTTCTTTCCAAGGATTTCTGTTACT
tgctaaa putative branch site (score: 2)
taaatttgtatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttagtatatgatggctgttcttatttccagaaccctactgaaaccatcagacaatgactagtaatttccaagttgctaaatttgtattcgtgctgacagGATTGTCAAATACGGCTGGAACATTTGCTGCCATTGTAGGAACAATTGGAGCTGGTTTCTTTGTTGAACTTGTGGGTTCTTTCCAAGGATTTCTGTTACT
- - - - - - tggctgt
- - - - - - - - - - - - - - - - accctac
- - - - - - - - - - - - - - - - - - - - -aaaccat
- - - - - - - - - - - - - - - - - - - - - - - - cagacaa