Sequence
atgc intronic sequence ATGC exonic sequenceGCTTCAATACTTCATCGGTGTGCAGCTTGATGGAAGTGATCATGTAGAGCCCCTCCAAAATCGTTTGTCTGAGAGAACAGAGATGCAGAGTTCGAAATTGgtatgtggttcatatcctactgagttttttgaacatctctttcctatcaaaggagactatgacattggtcacaattttag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G58140.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G58140.4 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: LOC_Os04g23890.2 (Oryza sativa), 5'ss of exon 9
GCTTCAATACTTCATCGGTGTGCAGCTTGATGGAAGTGATCATGTAGAGCCCCTCCAAAATCGTTTGTCTGAGAGAACAGAGATGCAGAGTTCGAAATTGgtatgt--ggttcatatcctactgagttttttgaacatctc--tttcctatcaaaggagactatgaca--ttggtcacaattttag--------------
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GCTTCAATACTTCATTGGTGTGCAACTTGATGGAAGTGATCATGTTGAACCCCTCAGGAACCGCCTTTCGGAGAATACTGAGATACAGAGTGCCAAATTGgtaggccagcttactgtattaatttccatttcaatgatctcaaatataaattggtgtataatattttaatttaggaataagatgagatgaatctagagac
upper sequence: AT5G58140.4 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA08G33560.1 (Glycine max), 5'ss of exon 9
GCTTCAATACTTCATCGGTGTGCAGCTTGATGGAAGTGATCATGTAGAGCCCCTCCAAAATCGTTTGTCTGAGAGAACAGAGATGCAGAGTTCGAAATTGgtatgtggt-tcatatcctactgagttttttgaacatctctttcctatcaaaggagactatgacattg-gtcacaattttag------------------
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ACTTCAATACTTCATTGGTGTTCAACTAGATGGAAGTGATCATGTAGAACCCTTAAAAAACCGCCTGTCTGAGACAACTGAGCAACAAAGTGCTAAGTTGgtgagtattgtcttctcagtcttagctttgtacttactggttcaagttactttgatgctttgtttttatatttcactttgtgatatgcaaaactaagaat
upper sequence: AT5G58140.4 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA16G19560.1 (Glycine max), 5'ss of exon 11
GCTTCAATACTTCATCGGTGTGCAGCTTGATGGAAGTGATCATGTAGAGCCCCTCCAAAATCGTTTGTCTGAGAGAACAGAGATGCAGAGTTCGAAATTGgtatgtggt-tcatatcctactgagttttttgaacatctctttcctatcaaaggagactatgacattggtcacaattttag-------------------
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ACTTCAATACTTCATTGGTGTTCAACTAGATGGAAGTGATCATGTAGAACCCTTAAAAAACCGCCTGTCTGAGACAACTGAGCAACAAAGTGCTAAGTTGgtgagtattgtcttctcagtcttagctttgtacttactggttcaagatactttgatgctttgtttttatatttcactttgggatatgcaaaactaagaatMapped 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|124912747|gb|EH986737.1|EH986737EST: CCTCCAAAATCGTTTGTCTGAGAGAACAGAGATGCAGAGTTCGAAAATTG GTGAAAGCTACGGCAACAAATGTAG
genomic: CCTCCAAAATCGTTTGTCTGAGAGAACAGAGATGCAGAGTTCGAAA-TTGgtatgtggtt ... acaattttagGTGAAAGCTACGGCAACAAATGTAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCTTCAATACTTCATCGGTGTGCAGCTTGATGGAAGTGATCATGTAGAGCCCCTCCAAAATCGTTTGTCTGAGAGAACAGAGATGCAGAGTTCGAAATTGgtatgtggttcatatcctactgagttttttgaacatctctttcctatcaaaggagactatgacattggtcacaattttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG