Sequence
atgc intronic sequence ATGC exonic sequenceTACCTTTTGTAACTACTGCTCCAAACCCAAGTCACCTAGAACCCATCACTGCCGCACGTGTGGCATGTGTGTATTGGACATGGATCACCATTGCCCCTTTgtaagtctcatagcgttttcaggtttctctttagttattacatatatcatttttacttaaagggctgaatgtagagtggctttttgagtttacgttgtgt...
Basic information
species | Arabidopsis thaliana |
transcript | AT3G18620.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G18620.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os04g57819.2 (Oryza sativa), 5'ss of exon 3
TACCTTTTGTAACTACTGCTCCAAACCCAAGTCACCTAGAACCCATCACTGCCGCACGTGTGGCATGTGTGTATTGGACATGGATCACCATTGCCCCTTTgtaagtctcatagcgttttcaggtttctctttagttattacatatatcatttttacttaaagggctgaatgtagagtggctttttgagtttacgttgtgt-----
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TACCTTCTGTACATACTGTAGTAAACCAAAGCCCCCAAGGGCACATCACTGCCGATCTTGCAAAATGTGTGTGTTAGACATGGATCATCATTGCCCATTTgtaagtcagacaac---tctaaaactaacttccaataccgt-tat-tcctctctacttatttgacttgacttggtttgtttcctttt-tctgtgtccaactgcag
upper sequence: AT3G18620.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os06g20400.4 (Oryza sativa), 5'ss of exon 2
TACCTTTTGTAACTACTGCTCCAAACCCAAGTCACCTAGAACCCATCACTGCCGCACGTGTGGCATGTGTGTATTGGACATGGATCACCATTGCCCCTTTgtaagtctcatagcgttttcaggtttctctttagttattacatatatcatttttacttaaagggctgaatgtagagtggc-----tttttgagtttacgttgtgt
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TACCTTCTGTACATACTGTAGTAAACCAAAGCCCCCAAGGGCACATCACTGCCGATCTTGTAAAATGTGTGTGTTAGACATGGATCATCATTGCCCATTTgtaagtttgacaac---tctaaaactaacttccgataccat-tat-tcttctctacttaattgacttgacttggtttgtttcctttttctgtgtccacctacag-
upper sequence: AT3G18620.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv01s0010g01160.t01 (Vitis vinifera), 5'ss of exon 3
TACCTTTTGTAACTACTGCTCCAAACCCAAGTCACCTAGAACCCATCACTGCCGCACGTGTGGCATGTGTGTATTGGACATGGATCACCATTGCCCCTTTgtaagtctcatagcgttttcaggtttctctttagttattacatatatcatttttacttaaagggctgaat-----gtagagtggctttttgagtttacgttgtgt
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TACCTTTTGTCACTATTGTTCAAAGCCGAAGTCCCCTAGGACCCATCACTGCCGTTCATGTGGAATGTGTATACTGGACATGGATCATCACTGCCCATTTgtaagtct-aaattgtccttaa-tttaccaattcttgttgcac-tgagggtgttatttagaatattctattttccgcttagaacatgttattatctatgtttt--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|125214488|gb|EL228894.1|EL228894EST: GGACATGGATCACCATTGCCCCTTT ATTGGGAACTGTGTTGGTGCGGGTAATCACAAATACTTCATAGCATTCCTT
genomic: GGACATGGATCACCATTGCCCCTTTgtaagtctca ... gtatttgcagATTGGGAACTGTGTTGGTGCGGGTAATCACAAATACTTCATAGCATTCCTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TACCTTTTGTAACTACTGCTCCAAACCCAAGTCACCTAGAACCCATCACTGCCGCACGTGTGGCATGTGTGTATTGGACATGGATCACCATTGCCCCTTTgtaagtctcatagcgttttcaggtttctctttagttattacatatatcatttttacttaaagggctgaatgtagagtggctttttgagtttacgttgtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttctctt