Sequence
atgc intronic sequence ATGC exonic sequenceCTCTTCCACACTATCTTAATCCTCGCTTTCTTGTTACCTTTTGTTTTCATCCTAACCGCTGTTGTTACCCTTGAAGGTGTCAACAAGTGCTCCTCTTTTGgtaacccctcttttcttctccttcaatcattctagtttcattctagttttgttgatgtgcacttgtttccgtcggatctaccacctaaatgttgtttgct...
Basic information
species | Arabidopsis thaliana |
transcript | AT3G01040.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G01040.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA19G03460.1 (Glycine max), 5'ss of exon 1
CTCTTCCACACTATCTTAATCCTCGCTTTCTTGTTACCTTTTGTTTTCATCCTAACCGCTGTTGTTACCCTTGAAGGTGTCAACAAGTGCTCCTCTTTTGgtaacccctcttttcttctccttcaatcattctagtttcattctagttttgttgatg--tgcacttg--tttccgtcggatctaccacctaaatgttgtttgct
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CTCTTCCACACCATCCTCATCCTCGCTTTCTTGTTGCCCTTTGTCTTTATTCTCACTGCTCTTGTTACCCTTGAAGGTGTCAACAAGTGCTCCTCATTCGgtactcctttttttattcatttggttacatagtgtatgcattttttttttatttttttttgtatttggtctttaatcgagtctaatggtatcttgtgatc----
upper sequence: AT3G01040.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA13G05950.1 (Glycine max), 5'ss of exon 1
CTCTTCCACACTATCTTAATCCTCGCTTTCTTGTTACCTTTTGTTTTCATCCTAACCGCTGTTGTTACCCTTGAAGGTGTCAACAAGTGCTCCTCTTTTGgtaacccctcttttcttc--tccttcaatcattctagt-ttcattctagttttgttgatgtgcacttgtttccgtcggatctaccacctaaatgttgtttgct
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CTCTTCCACACCATCCTCATCCTTGCTTTTTTGTTGCCCTTTGTCTTCATACTCACTGCTCTTGTTACCCTTGAAGGTGTCAACAAGTGCTCCTCATTTGgtactcttttttttttttcttcttccaatcattccgttatttattcatttggttacattgtgtacgtattttttttgtatttggtctttaattga-gtcta--
upper sequence: AT3G01040.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA18G49960.1 (Glycine max), 5'ss of exon 1
CTCTTCCACACTATCTTAATCCTCGCTTTCTTGTTACCTTTTGTTTTCATCCTAACCGCTGTTGTTACCCTTGAAGGTGTCAACAAGTGCTCCTCTTTTGgtaacccctcttttcttctccttcaatcattctagtttcattctagttttgttgatgtgcacttgtttcc---gtcggatctaccacctaaatgttgtttgct
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CTCTTCCACACCATCCTCATCCTCGCTTTTCTCCTTCCCTTTGTTTTCATCCTCACCGCCCTCGTCACCCTCGAAGGTGTCAACAACTGCTCCTCCTTCGgtactctcaaatctcattccctttcgtcaattc--ctgcattgcaatttttaatatgtttgtttgatttcttaggtagatct-tgatttgaacgttgtgtggt
upper sequence: AT3G01040.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv14s0108g01520.t01 (Vitis vinifera), 5'ss of exon 1
CTCTTCCACACTATCTTAATCCTCGCTTTCTTGTTACCTTTTGTTTTCATCCTAACCGCTGTTGTTACCCTTGAAGGTGTCAACAAGTGCTCCTCTTTTGgtaacccc-tct---tttcttctccttcaatcattctagtttcattctagttttgttgatgtgcacttgtttccgtcggatctaccacctaaatgttgtttgct
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CTTTTCCACACAATCCTCATCTTGGCATTCCTCTTACCCTTTGTCTTCATTCTCACTGCTGTTGTTACCCTTGAAGGTGTCAACAAGTGCTCATCATTCGgtactgccatctcaattttatcaccctccttcattccgcccaatttgttgatttctttggttattattgtctatgatagatcaag-atttgattaattagt---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|116476602|gb|EG519194.1|EG519194EST: CCTAACCGCTGTTGTTACCCTTGAAGGTGTCAACAAGTGCTCCTCTTTTG ATTGTTTCGGGAGGCGGCTAGGACCACGTCTTCTTGGTAGGATAGATGATT
genomic: CCTAACCGCTGTTGTTACCCTTGAAGGTGTCAACAAGTGCTCCTCTTTTGgtaacccctc ... gtttgctcagATTGTTTCGGGAGGCGGCTAGGACCACGTCTTCTTGGTAGGATAGATGATT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTCTTCCACACTATCTTAATCCTCGCTTTCTTGTTACCTTTTGTTTTCATCCTAACCGCTGTTGTTACCCTTGAAGGTGTCAACAAGTGCTCCTCTTTTGgtaacccctcttttcttctccttcaatcattctagtttcattctagttttgttgatgtgcacttgtttccgtcggatctaccacctaaatgttgtttgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC