Sequence
atgc intronic sequence ATGC exonic sequenceTGCTTCCAAAGAAGCTTGGGATGATTACCACAGATATCTATCAGATAAGAAAGCAAATGAGAAAGAAGTTTGGATCGTGAAACAGGGGATCAAGAAGCATgtatgaatcacttttgcatgattttttcatggcgattgatttttaggtggtgatagtttgtgttaattgtagtagtatgttgcttgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G44240.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G44240.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G347447_T01 (Zea mays), 5'ss of exon 2
TGCTTCCAAAGAAGCTTGGGATGATTACCACAGATATCTATCAGATAAGAAAGCAAATGAGAAAGAAGTTTGGATCGTGAAACAGGGGATCAAGAAGCATgtatgaatcacttttgcatgattttttcatggcgattgatttttaggtggtgatagtttgtgttaattgtagtagtatgttgcttgtag----------------
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TGCTTCAAAAGAGGCTTGGGATGATTACAATAGGTATCTTTCTGACAAGAAAGCAAATGAGAGGAAAATATGGTTGGTAAAGGATGGCGTCCGCATACAGgt-----tttttttttttcaatttctccatctaatttgctttaactttattgaaaatatggccttcttgatctattgtactccctccattcaaaattataagaca
upper sequence: AT5G44240.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA12G33340.1 (Glycine max), 5'ss of exon 2
TGCTTCCAAAGAAGCTTGGGATGATTACCACAGATATCTATCAGATAAGAAAGCAAATGAGAAAGAAGTTTGGATCGTGAAACAGGGGATCAAGAAGCATgtatgaatcacttttgcatgattttttcatggcgat----tgatttttaggtggtg---atagtttgtgttaattgt----agtagtatgttgcttgtag
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TGCATCAAAAGAGGCGTGGGATGATTACAATAGATATCTTTCAGACAAGAAAGCAAATGAGAAGGAAGTCTGGGTTGTCAAGAAGGGCATCAAGAAACATgtatgaagcatatttaattttcttgaatatatttatattgtgtttttaaggagttgagaacagaataaccaaacagtaaaaaatgtaaggaagattttaa
upper sequence: AT5G44240.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA13G37090.1 (Glycine max), 5'ss of exon 2
TGCTTCCAAAGAAGCTTGGGATGATTACCACAGATATCTATCAGATAAGAAAGCAAATGAGAAAGAAGTTTGGATCGTGAAACAGGGGATCAAGAAGCATgtatgaatcacttttgcatgattttttcatggcgat----tgatttttaggtggtgatagtttgtgttaattgtagtagtatgttgcttgtag----------
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TGCATCAAAAGAGGCATGGGATGATTACAATAGATATCTTTCAGACAATAAAGCAAATGAGAAGGAAGTCTGGGTTGTCAAGAAGGGCATCAAGAAACATgtatgaagcatatttaattttctttaatatatttatattgtgttttttaggagttgagaac--agaataacca-aacagtaaaaaatgtaaggaaagattttaMapped 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|301502030|gb|HO207570.1|HO207570EST: AAGCAAATGAGAAAGAAGTTTGGATCGTGAAACAGGGGATCAAGAAGCAT ATTCAAGCACAGGACATACAAGTTGGGAATATTGTCTGGTTGCGTGAGAAT
genomic: AAGCAAATGAGAAAGAAGTTTGGATCGTGAAACAGGGGATCAAGAAGCATgtatgaatca ... ttgcttgtagATTCAAGCACAGGACATACAAGTTGGGAATATTGTCTGGTTGCGTGAGAAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCTTCCAAAGAAGCTTGGGATGATTACCACAGATATCTATCAGATAAGAAAGCAAATGAGAAAGAAGTTTGGATCGTGAAACAGGGGATCAAGAAGCATgtatgaatcacttttgcatgattttttcatggcgattgatttttaggtggtgatagtttgtgttaattgtagtagtatgttgcttgtag
- - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC