Sequence
atgc intronic sequence ATGC exonic sequencegtatgttatgtgaaacagtaacccatcttctgttgtctgaatttattggaagctaacatattaataatatcaaactaactttacagctgtgtctttgacttattccagACCTCCAGCTTGATGTTAAAGGCTGCAAAGATGTATATGCTTCTTTTGACAAGTATGTTGAAGTTGAACGCCTTGAAGGAGACAACAAATACCATGCAGA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G11910.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G11910.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os11g36470.1 (Oryza sativa), 3'ss of exon 3
gtatgttatgtgaaacagtaacccatcttctgttgtctgaattt--attggaagctaacatatta-ataatatcaaactaactttacagctgtgtctttgacttattccagACCTCCAGCTTGATGTTAAAGGCTGCAAAGATGTATATGCTTCTTTTGACAAGTATGTTGAAGTTGAACGCCTTGAAGGAGACAACAAATACCATGCAGA
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-----------------gtaggttttgtcctggtaccagattgtgggttcacattagatgtgtttcattatttattgtcaagttaat-gctgtattatggccatg---cagACCTTCAACTTGATGTTAAAGGTTGTCGTGATGTGTATGCATCGTTTGATAAATATGTTGAAGTTGAGCGCCTCGAAGGTGATAATAAGTATCATGCAGA
upper sequence: AT3G11910.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 7
---------------------gtatgttatgtgaaac-agtaacccatcttc------------tgttgtctgaatttattggaagctaacatattaataatatcaaactaactttacagctgtgtctttgacttattccagACCTCCAGCTTGATGTTAAAGGCTGCAAAGATGTATATGCTTCTTTTGACAAGTATGTTGAAGTTGAACGCCTTGAAGGAGACAACAAATACCATGCAGA
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gtattcatttttggttcaagcttacattctttgtagctaggcattcgctattaatgggaatgcatgatacttgaactatatatgtcctaatataaaaagaa-aggaaaaaaaatgaactgcatttttatttttgcatggcagACCTACAACTTGATGTAAAAGGATGCCGGGATGTTTATGCTTCTTTTGACAAGTATGTAGAAGTTGAACGTCTTGAAGGTGATAACAGATACCAAGCTGA
upper sequence: AT3G11910.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: PP1S123_138V6.1 (Physcomitrella patens), 3'ss of exon 7
gtatgttatgtgaaacagtaacccatcttctgttgtctgaattta-ttggaagctaacatattaataatatcaaactaactttacagctgtgtctttgacttattccagACCTCCAGCTTGATGTTAAAGGCTGCAAAGATGTATATGCTTCTTTTGACAAGTATGTTGAAGTTGAACGCCTTGAAGGAGACAACAAATACCATGCAGA
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----gacgtgcgcatgaaccttttccaggtggaagtacagctccaattcggcactagattgtaagcattcagcgtttaatattatag-tatgttctt----cttttcagATTTGCAGCTGGATGTGAAAGGATGCAAGGATGTATATGAATCTTTTGACAAGTATGTTGAAGTAGAACGGTTGGAGGGCGAGAACAAATACCACGCCGA
upper sequence: AT3G11910.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: PP1S42_181V6.1 (Physcomitrella patens), 3'ss of exon 7
gtatgttatgtgaaacagtaacccatcttctgttgtctgaatttattggaagctaacatattaataatatcaa-actaactttacagctgtgtctttgacttattc--cagACCTCCAGCTTGATGTTAAAGGCTGCAAAGATGTATATGCTTCTTTTGACAAGTATGTTGAAGTTGAACGCCTTGAAGGAGACAACAAATACCATGCAGA
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----------tgtgggcatatcccttctcgtgatagtaggata-attgggaatcttcttgatgctttgagcattgcgaattgtttatgtgtatctttggtgtactttgcagATTTGCAGCTTGATGTGAAAGGGTGCAAGGATGTTTATGAATCTTTTGACAAGTATGTCGAGGTAGAACGCTTGGAAGGCGAGAACAAGTATCACGCAGA
upper sequence: AT3G11910.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: EFJ18164 (Selaginella moellendorffii), 3'ss of exon 5
gtatgttatgtgaaacagtaacccatcttctgttgtctgaatttattggaagctaacatattaataatatcaaactaactttacagctgtgtctttgacttattccagACCTCCAGCTTGATGTTAAAGGCTGCAAAGATGTATATGCTTCTTTTGACAAGTATGTTGAAGTTGAACGCCTTGAAGGAGACAACAAATACCATGCAGA
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--------------------------------------------gtttgtttctgcattttcgggaatttcaggcaa----tattgttaacccgttgg--aataacagATTTGCAGCTTGATGTAAAAGGCTGCAAGGATGTTTATGCGTCGTTTGATAAGTACGTCGAGGTAGAGAAGCTCGAAGGGGATAACAAGTATCACGCTGAMapped 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|125214698|gb|EL229016.1|EL229016EST: GAGTCATTTTATG ACCTCCAGCTTGATGTTAAAGGCTGCAAAGATGTATATGCTTCTTTTGACA
genomic: GAGTCATTTTATGgtatgttatg ... cttattccagACCTCCAGCTTGATGTTAAAGGCTGCAAAGATGTATATGCTTCTTTTGACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taacatattaataatatcaaactaactttacagctgtgtctttgacttattccagACCTCCAGCTTGATGTTAAAGGCTGCAAAGATGTATATGCTTCTTTTGACAAGTATGTTGAAGTTGAACGCCTTGAAGGAGACAACAAATACCATGCAGA
cttattcc CT-rich tract
tattaataatatcaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttatgtgaaacagtaacccatcttctgttgtctgaatttattggaagctaacatattaataatatcaaactaactttacagctgtgtctttgacttattccagACCTCCAGCTTGATGTTAAAGGCTGCAAAGATGTATATGCTTCTTTTGACAAGTATGTTGAAGTTGAACGCCTTGAAGGAGACAACAAATACCATGCAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA