Sequence
atgc intronic sequence ATGC exonic sequenceCTAAAACAAAATGGATGGGTTGGAAATTTTGCACTTGGAGCAAGCTATATTAGTTTGCCATGgtaagatatctcgtgtatcaataatatatggcgttgttctcatctcattgatttgtttcttgctcacttgactgatag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G51820.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G51820.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA07G18470.1 (Glycine max), 5'ss of exon 9
CTAAAACAAAATGGATGGGTTGGAAATTTTGCACTTGGAGCAAGCTATATTAGTTTGCCATGgtaagatatctcgtgtatcaataa-----------tata---tggcgttgttctcatc-tcattgatttgtttc---ttgctcacttgactgatag----
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TTAAAACAAAATGGATGGATTGGAAACTTTGCCCTTGGAGCAAGTTACATTAGCTTGCCATGgtgtggtatcttctacttcgataaactctaattgctatagatttaaactgttatcgtggttatgcacatgttttcagttaatcctttggttatttgtata
upper sequence: AT3G51820.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA18G43310.1 (Glycine max), 5'ss of exon 9
-CTAAAACAAAATGGATGGGTTGGAAATTTTGCACTTGGAGCAAGCTATATTAGTTTGCCATGgtaagatatctcgtgtatcaataa----tatatggcgttgttctcatctca--ttgatttgtttcttgctcacttgactgatag---------------
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GTTAAAACAAAATGGATGGATTGGAAACTTTGCCCTTGGAGCAAGTTACATTAGCTTGCCATggtgtggtatcttctactttgattaactctatttgcaatagttgaaatatgaaactgttatcctggttatgcacgttttttttagttaataatttggtta
upper sequence: AT3G51820.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv08s0105g00590.t01 (Vitis vinifera), 5'ss of exon 9
CTAAAACAAAATGGATGGGTTGGAAATTTTGCACTTGGAGCAAGCTATATTAGTTTGCCATGgtaagatatctcgtgt-------atcaataatata--tggcgttg-----ttctcatctcattgatttgtttcttgctcacttgactgatag--------
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CTCAAACAGAATGGGTGGATTGGAAATTTTGCTCTAGGAGCTAGCTATATTAGTTTGCCATGgtgcgatatcttcttctttttaaatccttggtacacttgatatagacagatttagaaatcatccaaattttttttttccatctagttcatttctacttccMapped 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|125231145|gb|EL245230.1|EL245230EST: AGCAAGCTATATTAGTTTGCCATG GTGGGCTGGCCAAGCATTGTTTGGCACTCTTACGCCAGATGTTGTTGTTCT
genomic: AGCAAGCTATATTAGTTTGCCATGgtaagatatc ... tgactgatagGTGGGCTGGCCAAGCATTGTTTGGCACTCTTACGCCAGATGTTGTTGTTCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTAAAACAAAATGGATGGGTTGGAAATTTTGCACTTGGAGCAAGCTATATTAGTTTGCCATGgtaagatatctcgtgtatcaataatatatggcgttgttctcatctcattgatttgtttcttgctcacttgactgatag
- - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - CAAGCT