Sequence
atgc intronic sequence ATGC exonic sequencegttcttctttacttatagacatatttgttcatttcttgtgcttctctttgctacttaaagacaatcttggtggaatattacagTTGTACAGCACGGTAACTCTTCGATTGGGAGAGAAGAAGCACTACAATCATAAAGTCGACGCCTATAGCTTTGCAATAGTTCTTTGGGAGCTTTTACACA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G50180.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G50180.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os02g38080.1 (Oryza sativa), 3'ss of exon 5
gttcttctttacttatagacatatttgttcatttcttgtgcttctctttgctacttaaagacaatcttggtggaatattacagTTGTACAGCACGGTAACTCTTCGATTGGGAGAGAAGAAGCACTACAATCATAAAGTCGACGCCTATAGCTTTGCAATAGTTCTTTGGGAGCTTTTACACA
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-gtttctgttactgcagttcatatttgtcaatataat----tcttttttgtcaatatttgctaatcctgaaatatatccacagTTGTACAGCACAGTGACATTGAGGCATGGAGAAAAGAAGCATTACAATCATAAAGTAGACGTTTATAGCTTTGCAATTGTGTTATGGGAACTCCTTCACA
upper sequence: AT5G50180.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA06G18730.1 (Glycine max), 3'ss of exon 4
gttcttctttacttatagacata-tttgttcatttcttgtgcttctctttgc-tacttaaagac-aatcttggtg--gaatattacagTTGTACAGCACGGTAACTCTTCGATTGGGAGAGAAGAAGCACTACAATCATAAAGTCGACGCCTATAGCTTTGCAATAGTTCTTTGGGAGCTTTTACACA
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--gtatattgatgaatagattcactttctctgtcttctctccatatttttgagcatgtatggactgattacagtgacaaaaatttcagTTGTATAGTACTGTCACACTAAGGCAAGGGGAGAAGAAGCATTACAACCATAAAGTTGATGCTTATAGTTTTGCAATTGTGTTGTGGGAGCTCTTACACA
upper sequence: AT5G50180.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA04G36210.1 (Glycine max), 3'ss of exon 4
gttcttctttacttatagacatatttgttcatttcttgtgcttctctttgctacttaaagac-aatcttggtg--gaatattacagTTGTACAGCACGGTAACTCTTCGATTGGGAGAGAAGAAGCACTACAATCATAAAGTCGACGCCTATAGCTTTGCAATAGTTCTTTGGGAGCTTTTACACA
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gtatattgacaaatacatgcattttctgtgtcttctctccatatttatgagcatctatggactgattacaatgacaaaaatttcagTTGTATAGTACTGTCACACTAAGGCAAGGGGAGAAGAAGCATTACAACCATAAAGTTGATGCTTATAGTTTTGCAATTGTGTTGTGGGAGCTCTTACACAMapped 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|86054523|gb|DR350280.1|DR350280EST: TGAGATGATGACGGCTGAGACAGGAACATACCGATGGATGGCACCCTGAG T-GTACAGCACGGT
genomic: TGAGATGATGACGGCTGAGACAGGAACATACCGATGGATGGCACC-TGAGgttcttcttt ... aatattacagTTGTACAGCACGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatttcttgtgcttctctttgctacttaaagacaatcttggtggaatattacagTTGTACAGCACGGTAACTCTTCGATTGGGAGAGAAGAAGCACTACAATCATAAAGTCGACGCCTATAGCTTTGCAATAGTTCTTTGGGAGCTTTTACACA
aatattaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcttctttacttatagacatatttgttcatttcttgtgcttctctttgctacttaaagacaatcttggtggaatattacagTTGTACAGCACGGTAACTCTTCGATTGGGAGAGAAGAAGCACTACAATCATAAAGTCGACGCCTATAGCTTTGCAATAGTTCTTTGGGAGCTTTTACACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT