Sequence
atgc intronic sequence ATGC exonic sequenceGCTCCCTACGGTGAGGCGGGTGGTGCAGCGAGAGGTGGCCAAAGAGCGTCGGATAGCTGCTTCCCTCCTCCGACTATTCTTCCATGATTGCTTCGTCAACgtaggtcttcttttcgttttttttttttatatattgtttttttgttaataaaagaaaggaagcgtacgcttgccatgtctacatgtattttcgttaattagaatgctaacattgttgtaaactgaaacaaaaatggcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G58400.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G58400.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv06s0004g07770.t01 (Vitis vinifera), 5'ss of exon 1
GCTCCCTACGGTGAGGCGGGTGGTGCAGCGAGAGGTGGCCAAAGAGCGTCGGATAGCTGCTTCCCTCCTCCGACTATTCTTCCATGATTGCTTCGTCAACgtaggtcttcttttcgttttttttttttatatattgtttttttgttaataaaagaaaggaagcgtacgcttgccatgtctacatgtattttcgttaattagaatgctaacattgttgtaaactgaaacaaaaatggcag
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CTTTGATACTGTGAAATCTGGAGTTCAATCGGCGGTTTCGAAAGAACGCCGCATGGGCGCTTCTCTCCTCCGTCTCTTCTTCCATGATTGCTTTGTCAATgtaatccttctagcttcttgttcttagtgtatgg-gcctgagtgttgggtcatgcatgt---ttcatatttg--aagtctaagaaaaatct---tagataaggtcatag------------------------------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|19878300|gb|AU239131.1|AU239131EST: GGATAGCTGCTTCCCTCCTCCGACTATTCTTCCATGATTGCTTCGTCAAC GGCTGTGATGCGTCAATATTATTGGATGATACACGTTCATTCCTCGGAGAA
genomic: GGATAGCTGCTTCCCTCCTCCGACTATTCTTCCATGATTGCTTCGTCAACgtaggtcttc ... aaaatggcagGGCTGTGATGCGTCAATATTATTGGATGATACACGTTCATTCCTCGGAGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCTCCCTACGGTGAGGCGGGTGGTGCAGCGAGAGGTGGCCAAAGAGCGTCGGATAGCTGCTTCCCTCCTCCGACTATTCTTCCATGATTGCTTCGTCAACgtaggtcttcttttcgttttttttttttatatattgtttttttgttaataaaagaaaggaagcgtacgcttgccatgtctacatgtattttcgttaattagaatgctaacattgttgtaaactgaaacaaaaatggcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC