Sequence
atgc intronic sequence ATGC exonic sequenceGTTGGAAATATTGGTGGAAGAGATTTTGCTGAATCATTGGCACCTGATGTTCAAAAGCTACTTgtaagtgactcccaaagatgacatgttatgttttttttcccgatataagtaaacatataaatgttttggggcttgttcgctgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G22780.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G22780.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA17G05410.1 (Glycine max), 5'ss of exon 4
GTTGGAAATATTGGTGGAAGAGATTTTGCTGAATCATTGGCACCTGATGTTCAAAAGCTACTTgtaagtgactcccaaagatgacatgttatgttttttttcccgatataagtaaacatataaatgttttggggcttgttcgctgcag
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GTTGGAAATATTGGTGGGAGAGAATTTGCTGAGTCCTTAGCACCTGATGTACAGAAGTTGTTGgtaagaaattattgcat-tagcattaaataggtggctt---gatt---ggaaaaatattgatgttaactgcattttgtgatctag
upper sequence: AT5G22780.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA12G30520.1 (Glycine max), 5'ss of exon 4
GTTGGAAATATTGGTGGAAGAGATTTTGCTGAATCATTGGCACCTGATGTTCAAAAGCTACTTgtaagtgactccca-aagatgacatgttatgttttttttcccgatataagtaaacatataaatgttttggggcttgttcgctgcag
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GTTGGAAATATTGGTGGGAGAGAATTTGCCGAATCCTTAGCACCAGATGTACAGAAGTTGCTGgtaagaaattactgcattatcattaaataggtggcttgattggaaaatattgatgttgactgcattttgtgatctag---------
upper sequence: AT5G22780.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv06s0061g01170.t01 (Vitis vinifera), 5'ss of exon 4
GTTGGAAATATTGGTGGAAGAGATTTTGCTGAATCATTGGCACCTGATGTTCAAAAGCTACTTgtaagtgactcccaaagatgacatgttatgttttttttcccgatataagtaa------acatataaatgttttggggcttgttcgctgcag--------------------------------------------------
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GTTGGGAATATTGGTGGGAGAGAGTTTGCTGAATCTTTAGCTCCTGATGTTCAAAAGTTACTTgtaagggtgaacatgactttgtttctttaattttcaattggcatttatggaatataaaggatataactgctttttattttttcccttttgggcatggggttggcgatggatgggttgtggtttcattggttgttggttcagMapped 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|125202700|gb|EL217654.1|EL217654EST: ATTTTGCTGAATCATTGGCACCTGATGTTCAAAAGCTACTT ATTTCTAGTAGTTGCAGACCTCTCGTAAGGAAAAAAGCGGCACTGTGCCTA
genomic: ATTTTGCTGAATCATTGGCACCTGATGTTCAAAAGCTACTTgtaagtgact ... ttcgctgcagATTTCTAGTAGTTGCAGACCTCTCGTAAGGAAAAAAGCGGCACTGTGCCTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTGGAAATATTGGTGGAAGAGATTTTGCTGAATCATTGGCACCTGATGTTCAAAAGCTACTTgtaagtgactcccaaagatgacatgttatgttttttttcccgatataagtaaacatataaatgttttggggcttgttcgctgcag
- - - - - - - TGGAAG
- - - - - - - GGAAGA
- - - - - - - - AAGAGA