Sequence
atgc intronic sequence ATGC exonic sequencegtatgctaacattggctatgttaataaacacattacttattaagcatagagttcaattgatgattcttttgggtttttgttctggaaaaacagGATCAGAACAGGTATAGTGCAAGCCGAGGTGCGCATTTGAATCTCAAGAGAGCTGAGAAAGCTCGGATTCTGGTCAGCAAGATTACTG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G26760.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G26760.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os06g20370.1 (Oryza sativa), 3'ss of exon 7
gtatgctaacattg-gctatgttaa--taaacacattac--ttattaagcat--agagttcaattgatg-------attcttttgggttt-------ttgttctgga---aaaa--------cagGATCAGAACAGGTATAGTGCAAGCCGAGGTGCGCATTTGAATCTCAAGAGAGCTGAGAAAGCTCGGATTCTGGTCAGCAAGATTACTG
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gtaagatgatattttgttgtagcaaatcaaaagtattacatcttttattctttcatgatttaagtgatattaccaaattattctgtttttaaatagcctatcatgaattgaaaatccttctgcagGATGACAACAGATATAACTCAAGCCGAGGTGCCCACCTGAATCTCAAACGTGCTGAAAAGGCTCGGATTCTTGTCAACAAGATTCCAG
upper sequence: AT4G26760.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA14G02180.4 (Glycine max), 3'ss of exon 7
gtatgctaacattggctatgttaataaacacattacttattaagc------atagagttcaattg-atgattcttttgggtttttgt----tctggaaaaacagGATCAGAACAGGTATAGTGCAAGCCGAGGTGCGCATTTGAATCTCAAGAGAGCTGAGAAAGCTCGGATTCTGGTCAGCAAGATTACTG
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----tttagcattagctttgctgcaagttatgatctttaaatagttgcctaatcctcctcgtttggattataatgttacactctgacacaaccttgtaaaacagGATGAGAACAGGTATAATGCAAGCAGAGGTGCACACATAAACCTCAAACGTGCAGAGAAAGCACGGATATTGGTCAACAAAATTCCAG
upper sequence: AT4G26760.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA02G46450.3 (Glycine max), 3'ss of exon 7
gtatgctaacattggctatgttaataaacacattacttattaagc------atagagttcaattg-atgattcttttgggtttttgt----tctggaaaaacagGATCAGAACAGGTATAGTGCAAGCCGAGGTGCGCATTTGAATCTCAAGAGAGCTGAGAAAGCTCGGATTCTGGTCAGCAAGATTACTG
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----tttagttttagctttgctgcaaggtatgatctttaaatggttgcctaatcctcctcatttggattataattttacactctgacacaaccttgtaaaacagGATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGTGCAGAGAAAGCTCGGATATTGGTCAACAAAATTCCAG
upper sequence: AT4G26760.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA14G02200.1 (Glycine max), 3'ss of exon 10
------gtatgctaacattggctatgttaataaacacattacttattaagcatagagttcaat-tgatgattcttttgggtttttgttctggaaaaacagGATCAGAACAGGTATAGTGCAAGCCGAGGTGCGCATTTGAATCTCAAGAGAGCTGAGAAAGCTCGGATTCTGGTCAGCAAGATTACTG
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tagcattagctttgctgcaagttatgatctttaaatggttgcctaatcctcctcgtttggattataatgttacactctgacacacaaccttgtaaaacagGATGAGAACAGGTATAATGCAAGCAGAGGTGCACACATAAACCTCAAACGTGCAGAGAAAGCACGGATATTGGTCAACAAAATTCCAGMapped 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|164041628|gb|ES120998.1|ES120998EST: AATGGATGTCAGCTTGTGAGGAAGAGAGCTGGCTCGAAGATTACAATCGA GATCAGAACAGGTATAGTGCAAGCCGAGG
genomic: AATGGATGTCAGCTTGTGAGGAAGAGAGCTGGCTCGAAGATTACAATCGAgtatgctaac ... ggaaaaacagGATCAGAACAGGTATAGTGCAAGCCGAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attaagcatagagttcaattgatgattcttttgggtttttgttctggaaaaacagGATCAGAACAGGTATAGTGCAAGCCGAGGTGCGCATTTGAATCTCAAGAGAGCTGAGAAAGCTCGGATTCTGGTCAGCAAGATTACTG
aattgat putative branch site (score: 4)
attctttt 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
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gtatgctaacattggctatgttaataaacacattacttattaagcatagagttcaattgatgattcttttgggtttttgttctggaaaaacagGATCAGAACAGGTATAGTGCAAGCCGAGGTGCGCATTTGAATCTCAAGAGAGCTGAGAAAGCTCGGATTCTGGTCAGCAAGATTACTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA