Sequence
atgc intronic sequence ATGC exonic sequencegtaagttatattttcttgagctttttctctacaataatttatttttgtattgatagagatgcatcctgtatcaaattcttaattcaatgctttctatgctactgtgtaataacgcaatctggcaatgtagGTTTTTAGCTGATGAGGGCGCCGTCTTGCTCCTCTACTCATTGTTGCAAGGGAATTCCGACTTTAAGGAGTATGTGTTGGTGCGAACTGATTTGGATACT
Basic information
species | Arabidopsis thaliana |
transcript | AT1G04200.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G04200.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA15G24080.1 (Glycine max), 3'ss of exon 8
gtaagttatattttcttgagctttttctctacaataatttatttttgtattgatagagatgcatcctgtatcaaatt---cttaattcaatgctttctatgctactgtgtaataacgcaatctggcaatgtagGTTTTTAGCTGATGAGGGCGCCGTCTTGCTCCTCTACTCATTGTTGCAAGGGAATTCCGACTTTAAGGAGTATGTGTTGGTGCGAACTGATTTGGATACT
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------------------------taaataacaagtctgtgtctctgtgtgtgtagaaatacatacttcattgtattggatttatatgagtattttaaacatttcaactt--ttactc-------ctctctagGTGCTTAGCTGATGAGACAGCTGTCCTACTTCTTTACTCATTGTTGCAAGGGAATTCCACCTTTCTGGAGTATGTCTTGGTCCGGACTGATTTGGATACA
upper sequence: AT1G04200.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA10G38920.1 (Glycine max), 3'ss of exon 7
gtaagttatattttcttgagctttttctctacaataatttatttttgtattgatagagatgcatcctgtatcaaattcttaattcaat-gctttctatgctactgtgtaataacgcaatctggcaatgtagGTTTTTAGCTGATGAGGGCGCCGTCTTGCTCCTCTACTCATTGTTGCAAGGGAATTCCGACTTTAAGGAGTATGTGTTGGTGCGAACTGATTTGGATACT
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---------------------------tgtatagtgtcatacattcatagtagttgcaattcataattttggattttgcacatttgttagtttttgaaaaaactttgcaacatt----tattcctctacagATGCTTAGCTGATGAGGCAGCTGTTCTACTGCTTTACTCATTGTTGCAAGGGAATTCTGCCTTTCTGGAGTATGTATTAGTGCGGACAGATCTGGATACA
upper sequence: AT1G04200.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA10G00550.1 (Glycine max), 3'ss of exon 7
gtaagttatattttcttgagctttttctctacaataatttatttttgtattgatagagatgcatcctgtatcaaattcttaattcaatgctttctatgctactgtgtaataacgcaatctggcaatgtagGTTTTTAGCTGATGAGGGCGCCGTCTTGCTCCTCTACTCATTGTTGCAAGGGAATTCCGACTTTAAGGAGTATGTGTTGGTGCGAACTGATTTGGATACT
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--------------------tttttaaataacaagtgtctctgtgtgtgtgtgtagaaatgcacacttcattggatttatatgatagtattttaaacattatatttt----------tccccctctctagGTGCTTAGCTGATGAGACAGCTGTCCTACTTCTTTACTCATTTTTGCAAGGGAATTCCACCTTTCTGGAGTATGTCTTAGTCCGGACTGATTTGGATACA
upper sequence: AT1G04200.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA20G28880.1 (Glycine max), 3'ss of exon 6
gtaagttatattttcttgagctttttctctacaataatttatttttgtattgatagagatgcatc---ctgtatcaaattcttaattcaatgctttctatgctactgtgtaataacgcaatctggcaatgtagGTTTTTAGCTGATGAGGGCGCCGTCTTGCTCCTCTACTCATTGTTGCAAGGGAATTCCGACTTTAAGGAGTATGTGTTGGTGCGAACTGATTTGGATACT
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----------------------------gtatagtgtcatacactcatagtagttgcaattcattattttggattttgcacattttttagt-ttttttaaaaaactttgcaacatt----tattcctctgcagATGCTTAGCTGATGAGGCAGCTGTTCTATTGCTTTACTCATTGTTGCAAGGGAATTCTGCCTTTCTGGAGTATGTATTAGTGCGGACAGATCTGGATGCA
upper sequence: AT1G04200.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv05s0020g04100.t01 (Vitis vinifera), 3'ss of exon 7
gtaagttatattttcttgagctttttctctacaataatttatttttgtattgatagagatgca-tcctgtatcaaattcttaattcaatgctttctatgctactgtgtaataacgcaatctggcaatgtagGTTTTTAGCTGATGAGGGCGCCGTCTTGCTCCTCTACTCATTGTTGCAAGGGAATTCCGACTTTAAGGAGTATGTGTTGGTGCGAACTGATTTGGATACT
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---------------------tttgaatctgaaaaagtataaatgtgtgatccttgatttgtaatcatgcatttgctttctgtctt-----cttttatttttttaacttctatagtactt-----gctcagGTTCTTGGCTGATGAGACTGCCATCCTACTGCTTTACTCACTGGTGCATGGAAACTCTGACTTCCTGGAGTATGTTTTGGTGCGAACTGATTTGGACACAMapped 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|86088183|gb|DR383942.1|DR383942EST: GGTCCACATGTTCGGATACCATTTGCTTCACTATTTGATACTCTCGGCAT GTTTTTAGCTGATGAGGGCGCCGTCTTGCTCCTCTACTCATTGTTGCAAGG
genomic: GGTCCACATGTTCGGATACCATTTGCTTCACTATTTGATACTCTCGGCATgtaagttata ... ggcaatgtagGTTTTTAGCTGATGAGGGCGCCGTCTTGCTCCTCTACTCATTGTTGCAAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcttaattcaatgctttctatgctactgtgtaataacgcaatctggcaatgtagGTTTTTAGCTGATGAGGGCGCCGTCTTGCTCCTCTACTCATTGTTGCAAGGGAATTCCGACTTTAAGGAGTATGTGTTGGTGCGAACTGATTTGGATACT
taataac putative branch site (score: 1)
aattcaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttatattttcttgagctttttctctacaataatttatttttgtattgatagagatgcatcctgtatcaaattcttaattcaatgctttctatgctactgtgtaataacgcaatctggcaatgtagGTTTTTAGCTGATGAGGGCGCCGTCTTGCTCCTCTACTCATTGTTGCAAGGGAATTCCGACTTTAAGGAGTATGTGTTGGTGCGAACTGATTTGGATACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG