Sequence
atgc intronic sequence ATGC exonic sequence...gaacattagacttatttaagtagctatgcttgctcaacgtttttgttaatttgatcaaatctggatgctatggttctattgttgtctttatgacctgaagGAGCAAGTAAGGAGCGGAGATGCAAGTGCAACAGAGCTCTTTGAGCTTGGTGCAGTGATGTTGAGAAGGAAGTTTTATCCTGCAGCCAACAAGTTTTTGC
Basic information
species | Arabidopsis thaliana |
transcript | AT1G22700.3 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G22700.3 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA20G31640.1 (Glycine max), 3'ss of exon 2
gaacattagactta--tttaagtagctatgcttgctcaacgtttttgttaatttgatcaaatctggatgctatggttctattgttgtctttatgacctgaagGAGCAAGTAAGGAGCGGAGATGCAAGTGCAACAGAGCTCTTTGAGCTTGGTGCAGTGATGTTGAGAAGGAAGTTTTATCCTGCAGCCAACAAGTTTTTGC
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aaagcttatacacaagcacaactgcacaagccagttggaacttggaactagttgttttttatcctt-tgtcatccttactcattttctgccattatctca-gGAGCAAGTAAGAAGTGGTGATGCTGGTGCAACTGAGCTTTTTGAACTTGGTGCAGTGATGCTGCGCAGGAAATTTTACCCTGCTGCTACCAAGTTCTTGC
upper sequence: AT1G22700.3 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA10G35950.3 (Glycine max), 3'ss of exon 4
--gaacat-tagacttatttaagtagctatgcttgctcaacgtttttgttaatttgatcaa--atctggatgctatggttctattgttgtctttatgacctgaagGAGCAAGTAAGGAGCGGAGATGCAAGTGCAACAGAGCTCTTTGAGCTTGGTGCAGTGATGTTGAGAAGGAAGTTTTATCCTGCAGCCAACAAGTTTTTGC
|| | | || || || | | | || | | | | ||||| | ||||| || | || | || || || | |||| | ||||||||||||| || || ||||| ||||||| ||||| ||||| ||||||||||||||| || | ||||| ||||| ||||| || | |||||| ||||
tagagcttatacacaagcacaactggacaagccagttggaactagttgttt-tatgatcctttgtcagtttgtccttactcattttctgccattatctc----agGAGCAAGTAAGAAGTGGTGATGCTGGTGCAACTGAGCTTTTTGAACTTGGTGCAGTGATGCTGCGCAGGAAATTTTACCCTGCTGCTACCAAGTTCTTGC
upper sequence: AT1G22700.3 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv18s0072g00860.t01 (Vitis vinifera), 3'ss of exon 4
--gaacattagacttatttaagtagctatgcttgctcaacgtttttgttaatttgatcaaatctggatgctatggttctattgttgtctttatgacctgaagGAGCAAGTAAGGAGCGGAGATGCAAGTGCAACAGAGCTCTTTGAGCTTGGTGCAGTGATGTTGAGAAGGAAGTTTTATCCTGCAGCCAACAAGTTTTTGC
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gttttttctgaaggaaatttatttttcattataatgtatactaaagagtggctggcaggaatctgtttcttata-ttatgcctctctttttg-gaatttcagGAGCAAGTAAGAAGTGGTGATGCCAGTGCAACTGAACTGTTTGAACTTGGAGCAGTGATGTTGCGGAGGAAATTTTATCCAGCTGCTACTAAATTCTTGCMapped 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|86075309|gb|DR371066.1|DR371066EST: AGTACTTGTACGCAGAGAACTAGACCTCTCCGCTAAAGAATTGCAG GAGCAAGTAAGGAGCGGAGATGCAAGTGCAACAGAGCTCTTTGAGCTTGGT
genomic: AGTACTTGTACGCAGAGAACTAGACCTCTCCGCTAAAGAATTGCAGgtaccagaca ... tgacctgaagGAGCAAGTAAGGAGCGGAGATGCAAGTGCAACAGAGCTCTTTGAGCTTGGT
EST:
gi|163976638|gb|ES078431.1|ES078431EST: AGACCTCTCCGCTAAAGAATTGCAG GAGCAAGTAAGGAGCGGAGATGCAAGTGCAACAGAGCTCTTTGAGCTTGGT
genomic: AGACCTCTCCGCTAAAGAATTGCAGgtaccagaca ... tgacctgaagGAGCAAGTAAGGAGCGGAGATGCAAGTGCAACAGAGCTCTTTGAGCTTGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaatttgatcaaatctggatgctatggttctattgttgtctttatgacctgaagGAGCAAGTAAGGAGCGGAGATGCAAGTGCAACAGAGCTCTTTGAGCTTGGTGCAGTGATGTTGAGAAGGAAGTTTTATCCTGCAGCCAACAAGTTTTTGC
tctttat CT-rich tract
atcaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaacattagacttatttaagtagctatgcttgctcaacgtttttgttaatttgatcaaatctggatgctatggttctattgttgtctttatgacctgaagGAGCAAGTAAGGAGCGGAGATGCAAGTGCAACAGAGCTCTTTGAGCTTGGTGCAGTGATGTTGAGAAGGAAGTTTTATCCTGCAGCCAACAAGTTTTTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG