Sequence
atgc intronic sequence ATGC exonic sequencegtaagaactaccttttagtgaacgagcaaaaatcttatatgattcatcacactaaaaccaaatcttgatttgtttatttattagGGTGTTTATGGATATCCAATAGAGATTCAAGCTCTGTTTTTCATGGCATTGAGATGCGCCTTGTCGATGCTTAAACCAGACGAGGAAGGTCGAGATTTCA
Basic information
species | Arabidopsis thaliana |
transcript | AT4G09510.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G09510.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA10G35890.2 (Glycine max), 3'ss of exon 3
-----------------gtaagaactaccttttagtgaacgag---caaaaatcttatatgattcatcacactaaaaccaaatcttgatttgtttatttattagGGTGTTTATGGATATCCAATAGAGATTCAAGCTCTGTTTTTCATGGCATTGAGATGCGCCTTGTCGATGCTTAAACCAGACGAG---GAAGGTCGAGATTTCA
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tttcaagctccctggagttaagctttcattcttatttgactgattttgaagaacttgcatattttatta----attgtttcgtcctcttccttttttcttgcagGGTATTTATGGTTATCCAATAGAGATTCAAGCACTTTTCTTCATGGCATTGAGATGTGCTTTGTCAATGCTGAAACAGGATGACGCCGAAGGGAAGGAAT---
upper sequence: AT4G09510.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA20G31730.2 (Glycine max), 3'ss of exon 3
--------------gtaagaactaccttttagtgaacgagc--aaaaatcttatatgattcatcacactaaaaccaaatcttgatttgtttatttat-tagGGTGTTTATGGATATCCAATAGAGATTCAAGCTCTGTTTTTCATGGCATTGAGATGCGCCTTGTCGATGCTTAAACCAGACGAG---GAAGGTCGAGATTTCA
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tcatgttccctggagttaagctttcatgtatttggctgattttgaagaatttgcatattttatta-attgtttcttctgcttcctttcttttttcttgcagGGCATTTATGGTTATCCAATAGAGATTCAAGCACTTTTCTTCATGGCATTGAGATGTGCTTTGTCAATGCTGAAACAGGATGACGCCGAAGGAAAGGAAT---Mapped 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|125158781|gb|EL187208.1|EL187208EST: TTGTTCTATGGTTGATAGGAGAATG GGTGTTTATGGATATCCAATAGAGATTCAAGCTCTGTTTTTCATGGCATTG
genomic: TTGTTCTATGGTTGATAGGAGAATGgtaagaacta ... tatttattagGGTGTTTATGGATATCCAATAGAGATTCAAGCTCTGTTTTTCATGGCATTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatcttatatgattcatcacactaaaaccaaatcttgatttgtttatttattagGGTGTTTATGGATATCCAATAGAGATTCAAGCTCTGTTTTTCATGGCATTGAGATGCGCCTTGTCGATGCTTAAACCAGACGAGGAAGGTCGAGATTTCA
tttgttt CT-rich tract
aaatcttgatttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaactaccttttagtgaacgagcaaaaatcttatatgattcatcacactaaaaccaaatcttgatttgtttatttattagGGTGTTTATGGATATCCAATAGAGATTCAAGCTCTGTTTTTCATGGCATTGAGATGCGCCTTGTCGATGCTTAAACCAGACGAGGAAGGTCGAGATTTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG