Sequence
atgc intronic sequence ATGC exonic sequencegttaggcaatcactagtaaggcaatgagtaattctgaattgctgcttagagagactctttcataacattgtagtccaaactacattgcagATGGAGAAGTTGAGAGCTTCAAGTTGATTCCAGTAGCCCAAGTTGCTAGTGTGATTAAGAAAACTAGTTTCTTCAAGGCGAACTGTTCCCTTGTCATTAT
Basic information
species | Arabidopsis thaliana |
transcript | AT5G19460.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G19460.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA09G31960.1 (Glycine max), 3'ss of exon 7
gttaggcaatcactagtaaggcaatgagtaattctgaattgctgcttagagagactctttca-----taacattgtagtccaaactacattgcagATGGAGAAGTTGAGAGCTTCAAGTTGATTCCAGTAGCCCAAGTTGCTAGTGTGATTAAGAAAACTAGTTTCTTCAAGGCGAACTGTTCCCTTGTCATTAT
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gtaagcc--ttacaggttcttcaattt-cactgttgtttttcttctaatggcgccctgttcaccctttgtgataactggtttaataaaatatcagATGGAGAAGTTGATAGCTTCAAGTTGATCCCTGTTACGCAAGTTGCAGAAGTCATACGCAAGACAGAGTTTTTCAAGCCGAATTGCTCTCTTGTAATCAT
upper sequence: AT5G19460.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA18G08420.1 (Glycine max), 3'ss of exon 7
-----gttaggcaatcactagtaaggcaatga-gtaattctgaattgctgcttagagagactctttcataacattgtagtccaaactacattgcagATGGAGAAGTTGAGAGCTTCAAGTTGATTCCAGTAGCCCAAGTTGCTAGTGTGATTAAGAAAACTAGTTTCTTCAAGGCGAACTGTTCCCTTGTCATTAT
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ggtgagccgtacatgttcttcaaatttactgttgttatgttctagtggtgccatgatca--ccctttgtgataac-tggtttaa-taaaatatcaGATGGAGAAGTTGATAGCTTCAAGTTGATCCCTGTTACACAAGTTGCAGAAATCATACGCAAGACACAGTTTTTCAAGGCAAATTGCGCTCTTGTAATCA-
upper sequence: AT5G19460.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA07G09850.1 (Glycine max), 3'ss of exon 9
------gttaggcaatcactagtaaggcaatgagtaattctgaattgctgcttagagagactctttcataacattgtagtccaaactacattgcagATGGAGAAGTTGAGAGCTTCAAGTTGATTCCAGTAGCCCAAGTTGCTAGTGTGATTAAGAAAACTAGTTTCTTCAAGGCGAACTGTTCCCTTGTCATTAT
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gtaagccttacaagttcttcagttttactgttgtttatgttctagtgatgccctgctca--ccctttgtgataac-tggtttaa--taaatatcagATGGAGAAGTTGATAGCTTCAAGTTGACCTCTGTTATGCAA-----------------------------------------------------------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|124856494|gb|EH940931.1|EH940931EST: GTTTTGTTATGATTTGGAACTCCCTGAAGATTTTGTTCCCAAAAATCAAG ATGGAGAAGTTGAGAGCTTCAAGTTGATTCCAGTAGCCCAAGTTGCTAGTG
genomic: GTTTTGTTATGATTTGGAACTCCCTGAAGATTTTGTTCCCAAAAATCAAGgttaggcaat ... tacattgcagATGGAGAAGTTGAGAGCTTCAAGTTGATTCCAGTAGCCCAAGTTGCTAGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaattgctgcttagagagactctttcataacattgtagtccaaactacattgcagATGGAGAAGTTGAGAGCTTCAAGTTGATTCCAGTAGCCCAAGTTGCTAGTGTGATTAAGAAAACTAGTTTCTTCAAGGCGAACTGTTCCCTTGTCATTAT
tcataac putative branch site (score: 2)
tttcataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttaggcaatcactagtaaggcaatgagtaattctgaattgctgcttagagagactctttcataacattgtagtccaaactacattgcagATGGAGAAGTTGAGAGCTTCAAGTTGATTCCAGTAGCCCAAGTTGCTAGTGTGATTAAGAAAACTAGTTTCTTCAAGGCGAACTGTTCCCTTGTCATTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA