Sequence
atgc intronic sequence ATGC exonic sequence...taccaagaacctaaatgatttaagtttgacaataacatcaaatctttcaacctgaaacatactgaaaatatgttaaaagattcagttttggtatttgcagATTGCGAATGGAAAGCACAAGCTGGAAACATCTGTGTAGCATCATTCGACTGGAGCTGCAGCGGAATCTGCAGATCCGCAGATCGCATCAAAGAGGTTCA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G05170.2 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G05170.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: LOC_Os03g38050.1 (Oryza sativa), 3'ss of exon 10
taccaagaacctaaatgatttaagtttga--caataacatcaaatc---tttcaacctgaaacatactgaaaatatgttaaaagattcagttttggtatttgcagATTGCGAATGGAAAGCACAAGCTGGAAACATCTGTGTAGCATCATTCGACTGGAGCTGCAGCGGAATCTGCAGATCCGCAGATCGCATCAAAGAGGTTCA
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tgatgaaatttcaaatcatttttttttcttttgtcaacttctgatcatattttagccaactgttggttacaaatttttcaaatggttcgcacta-----ctgcagATTGCGAATGGAAGGCGCAGGCAGGCAACGTGTGCGCCGCGTCGTTCGACTGGAGCTGCAGCGGCATCTGCAAATCGGCGGATCGGATGAAGGAGGTCCA
upper sequence: AT1G05170.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GRMZM2G080231_T02 (Zea mays), 3'ss of exon 10
taccaagaacctaaatgatttaagt-ttgacaataacatcaaatctttcaacctgaaacatactgaaaatatgttaaaagattcagttttggtattt--gcagATTGCGAATGGAAAGCACAAGCTGGAAACATCTGTGTAGCATCATTCGACTGGAGCTGCAGCGGAATCTGCAGATCCGCAGATCGCATCAAAGAGGTTCA
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gttggagcgcaggagcagcagcagcgctgtcagctgaaacggttcttt--gcctaacacgcacaccaact-caccaagcttcgcgctcaccaaacttgtgcagATTGCGAGTGGAAGGCGCAGGCGGGGAACGCGTGCGTCGCCTCCTTCGACTGGAGCTGCAGCGGCATCTGCAAATCCGCTGACCGGATCAAGGAGGTCCA
upper sequence: AT1G05170.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA12G10520.1 (Glycine max), 3'ss of exon 10
taccaagaacctaaatgatttaagtttgacaataacatcaaatcttt--caacctgaaacatactgaaaatat-gttaa-----aagattcagttttggtat--ttgcagATTGCGAATGGAAAGCACAAGCTGGAAACATCTGTGTAGCATCATTCGACTGGAGCTGCAGCGGAATCTGCAGATCCGCAGATCGCATCAAAGAGGTTCA
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------gtaaatacttttcctaaatatataaatcatattgaatccttatctgtttagtttgtttacaaattattattaattgttaaattgcaaattggttattcttgcagATTGTGAGTGGAAGGCACAAGCTGGAAACATTTGTGTTGCATCATTTGATTGGAGCTGCAGTGGAATTTGCAGGTCTGCTGAGAGGATTAAAGAGGTACA
upper sequence: AT1G05170.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA06G46230.2 (Glycine max), 3'ss of exon 10
---------------------------taccaaga---acctaaatgatttaagtt-tgacaataacatcaaatctttcaacctgaaacatactgaaaatatgttaaaa----gattcagttttggtatttgcagATTGCGAATGGAAAGCACAAGCTGGAAACATCTGTGTAGCATCATTCGACTGGAGCTGCAGCGGAATCTGCAGATCCGCAGATCGCATCAAAGAGGTTCA
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gtaaatacttttcctgaatatataaatcacagtgactcatttaaatgattgatgtgatcataccattatctgtttggtttgtttacaacttattattaat-tgttaacattgcaaattggttattattcttgcagATTGTGAGTGGAAGGCCCAAGCAGGGAACATTTGTGTTGCATCATTTGATTGGAGCTGCAGTGGAATTTGCAGGTCTGCTGAGAGGATTAAAGAGGTACA
upper sequence: AT1G05170.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA13G38500.1 (Glycine max), 3'ss of exon 10
taccaagaacctaaatgatttaagtt-tgacaataacatcaa----atctttcaacctgaaacatactgaaaatatgttaaaagattcagttttg--gtatttgcagATTGCGAATGGAAAGCACAAGCTGGAAACATCTGTGTAGCATCATTCGACTGGAGCTGCAGCGGAATCTGCAGATCCGCAGATCGCATCAAAGAGGTTCA
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-----atagtttagct--tttatattatcacatcattatttatttggtttgtttgtttattagcaatggtcaacattttgaaattcttgagttggtcatgcttgcagATTGTGAATGGAAAGCACAAGCAGGCAACGTTTGTGTTGCTTCATTTGATTGGACGTGCAGTGGAATTTGCAGGTCTGCTGAAAGGATCAAAGAGGTTCAMapped 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|86059961|gb|DR355718.1|DR355718EST: TGATGTTAAACACATTGATGATAGAAGATTATGCTGCGGAACTCCTCCTG ATTGCGAATGGAAAGCACAAGCTGGAAACATCTGTGTAGCATCATTCGACT
genomic: TGATGTTAAACACATTGATGATAGAAGATTATGCTGCGGAACTCCTCCTGgtaagtctta ... gtatttgcagATTGCGAATGGAAAGCACAAGCTGGAAACATCTGTGTAGCATCATTCGACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcaacctgaaacatactgaaaatatgttaaaagattcagttttggtatttgcagATTGCGAATGGAAAGCACAAGCTGGAAACATCTGTGTAGCATCATTCGACTGGAGCTGCAGCGGAATCTGCAGATCCGCAGATCGCATCAAAGAGGTTCA
aaaatatgttaaaaga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taccaagaacctaaatgatttaagtttgacaataacatcaaatctttcaacctgaaacatactgaaaatatgttaaaagattcagttttggtatttgcagATTGCGAATGGAAAGCACAAGCTGGAAACATCTGTGTAGCATCATTCGACTGGAGCTGCAGCGGAATCTGCAGATCCGCAGATCGCATCAAAGAGGTTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG