Sequence
atgc intronic sequence ATGC exonic sequenceGATGCACCAGTACCTCCCTGCATTTCACAACTCGACGGTGGACTTGTTCAGGTTGCAATAGAAGTGGAAGACCGTGCACAACGTTCAGCAATCACAAgtaaaacatagtattatggcacaaaatctattttcttactcacttgacatggatcttcgattaaacaattgccatactcttttttctctctgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G63440.3 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G63440.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G099547_T03 (Zea mays), 5'ss of exon 4
GATGCACCAGTACCTCCCTGCATTTCACAACTCGACGGTGGACTTGTTCAGGTTGCAATAGAAGTGGAAGACCGTGCACAACGTTCAGCAATCACAAgtaaaa----catagtattatggcacaaaatctattttcttactcacttgacatgga---tcttcgattaaaca------attgccatactcttttttctctctgcag-------------------------------------------------------------------------------------
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GATGCTCCTGTACCTCCTTGCATCACACAACTGGAAGGTGGACTTGTCCAAGTAGCCATTGAAGTGGAAGACCGGGCACAACGTTCAGCAATAACAAgtatgcattttttaacaatgtagtatgctatcttttttttgaaac-tacaacatgcaatgtttatgatgaaaagttgtacatggctgcactgacagtttcatgtgaaacattgtagattggacattggtgtgcactatttctttgagttcactggtgcatacaatgtgttgacagaattctgtgtgttttcag
upper sequence: AT5G63440.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv17s0000g01530.t01 (Vitis vinifera), 5'ss of exon 4
GATGCACCAGTACCTCCCTGCATTTCACAACTCGACGGTGGACTTGTTCAGGTTGCAATAGAAGTGGAAGACCGTGCACAACGTTCAGCAATCACAAgtaaaacatagtattatggcacaaaatctattttctta-ctcacttgacatggatcttcgattaaacaattgccatactcttttttct--ctctgcag--
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GATGCTCCTGTGCCTCCTTGCATATCACAGTTAGAAGGGGGGCTTGTCCAAGTGGCAATAGAGGTGGAAGACCGTGCACAACGCTCTGCAATTACAAgtaaaatatttatttacatttttctagctcctttgttatctcatgcgacctgctttgccatgtagcatatcagcatttcttgctgggaaaccccatagatMapped 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|19878734|gb|AU239565.1|AU239565EST: TCAGGTTGCAATAGAAGTGGAAGACCGTGCACAACGTTCAGCAATCACAA GGGTAAATGCTGATGATGTTCGTGTGACTGTTGCTGCACCAGCAGCCCGTG
genomic: TCAGGTTGCAATAGAAGTGGAAGACCGTGCACAACGTTCAGCAATCACAAgtaaaacata ... ctctctgcagGGGTAAATGCTGATGATGTTCGTGTGACTGTTGCTGCACCAGCAGCCCGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATGCACCAGTACCTCCCTGCATTTCACAACTCGACGGTGGACTTGTTCAGGTTGCAATAGAAGTGGAAGACCGTGCACAACGTTCAGCAATCACAAgtaaaacatagtattatggcacaaaatctattttcttactcacttgacatggatcttcgattaaacaattgccatactcttttttctctctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA