Sequence
atgc intronic sequence ATGC exonic sequenceTGATTTGTCTCATCCTGATAAAAGCGGTGATTTCGCTAATAATGGCCCCACTCTTGAAGTTAGGATTCCAGCTGAGCATGTTACTGCTACAAATCGCCAAgtaagtcgaatatatatccaaatttttctcataatcattttcattgtttttcttctagatgacttggtgcatatagttttagttccagtcttttgatctgtttaattcacttcgcctattaatttgagaaacacagctcccttgtttgttacttgctgagacatttggctcgtgtgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G08450.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G08450.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G31960.1 (Glycine max), 5'ss of exon 4
TGATTTGTCTCATCCTGATAAAAGCGGTGATTTCGCTAATAATGGCCCCACTCTTGAAGTTAGGATTCCAGCTGAGCATGTTACTGCTACAAATCGCCAAgtaagtcga---atatatatccaaatttt----tctcataatcattttcattgtttttcttctagatgacttggtgcatatagttttagttccagtcttttgatctgtttaattcacttcgcctattaatttgagaaacacagctcccttgtttgttacttgctgagacatttggctcgtgtgcag
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ATCTCAATCTGAAATGGAGAAAAATGGTGAAAGCTCTAATAATGGTCCCACTCTGGAAATTCGGATACCATCTGAGCATGTAACGGCTACAAACCGCCAAgtaagtttatttttgtttgttagtattataaaattgaagaatgtgtgtcttcattttttttggaatggatgaggggagtagggactgcgttggtggcttt--------------------------------------------------------------------------------------
upper sequence: AT5G08450.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA16G33300.1 (Glycine max), 5'ss of exon 3
TGATTTGTCTCATCCTGATAAAAGCGGTGATTTCGCTAATAATGGCCCCACTCTTGAAGTTAGGATTCCAGCTGAGCATGTTACTGCTACAAATCGCCAAgtaagtcgaatatatatccaaatttttctcataatcattttcattgtttttcttctagatgacttggtgcatatagttttagttccagtcttttgatctgtttaattcacttcgcctattaatttgagaaacacagctcccttgtttgttacttgctgagacatttggctcgtgtgcag
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ATCTCAATCTCAAGTGGACAAAAATAGTGAAAGCTCTAATAGTGGCCCCACTCTTGAAATTCGGATACCAGCTGAGAATGTTACAGCTACAAACCGTCAAgtgag----------atcaaactctttgttattataaattt-atgttgaatgcattgggggggggggggggggggggtgagattatagcttgt--gtgtgttttttttacttt------------------------------------------------------------------
upper sequence: AT5G08450.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA09G28530.1 (Glycine max), 5'ss of exon 2
TGATTTGTCTCATCCTGATAAAAGCGGTGATTTCGCTAATAATGGCCCCACTCTTGAAGTTAGGATTCCAGCTGAGCATGTTACTGCTACAAATCGCCAAgtaagtcgaatatatatccaaatttttctcataatcattttcattgtttttcttctagatgacttggtgcatatagttttagttccagtcttttgatctgtttaattcacttcgcctattaatttgagaaacacagctcccttgtttgttacttgctgagacatttggctcgtgtgcag
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ATCTCAATCTCAAGTTGAAAAAAATAGTGAAAGCTCTAATGGTGGCCCCACTCTTGAAATCCGGATACCAGCTGAGAATGTTACAGCTACAAACCGTCAAgtgag----------atcaaactctttgttattataaaatttagt----------tcaatgcattgggggcggggggttgagatgatagcttgtg-tttgtgt--tttacattgatgattgtt--------------------------------------------------------
upper sequence: AT5G08450.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA20G35720.1 (Glycine max), 5'ss of exon 3
TGATTTGTCTCATCCTGATAAAAGCGGTGATTTCGCTAATAATGGCCCCACTCTTGAAGTTAGGATTCCAGCTGAGCATGTTACTGCTACAAATCGCCAAgtaagtcgaatatatatccaaatttttctca---taatcattttcattgtttttcttctagatgacttggtgcatatagttttagttccagtcttttgatctgtttaattcacttcgcctattaatttgagaaacacagctcccttgtttgttacttgctgagacatttggctcgtgtgcag
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ATCTCAATCTCAAATGGAAAAAAATGGTGAAAGCTCTAATAATGGTCCCACTCTGGAAATTCGTATACCATCTGAGCATATCACAGCTACAAACCGCCAAgtaagtttatttttgtttgttattattataaaattgaagaatctgtgtgacttcattttttttggaaggggggaggggaatagagactgtgtttgtggct----------------------------------------------------------------------------------
upper sequence: AT5G08450.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv07s0130g00270.t01 (Vitis vinifera), 5'ss of exon 3
TGATTTGTCTCATCCTGATAAAAGCGGTGATTTCGCTAATAATGGCCCCACTCTTGAAGTTAGGATTCCAGCTGAGCATGTTACTGCTACAAATCGCCAAgtaagtcgaatatatatccaaatttttctcataatcattttcattgttttt-cttctagatgacttggtgcatatagttttagttccagtcttttgatctgtttaattcacttcgcctattaatttgagaaacacagctcccttgtttgttacttgctgagacatttggctcgtgtgcag
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TGAATCATCTCAAGCTGATAAAAATGGTGAAAGCTCTTCTAATGGTCCTACTTTAGAAATCCGAATACCAGCTGAGCATGTTACTGCTACGAATCGCCAAgtaag----atcaacctcagaaaatttcttgtggttgtacagacaatgatgacttttggtttagttgctttatgaagtttgaaaataattctgcaaattgcctt----------------------------------------------------------------------------Mapped 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|163984539|gb|ES092500.1|ES092500EST: CTCTTGAAGTTAGGATTCCAGCTGAGCATGTTACTGCTACAAATCGCCAA GTAAGAGGTGGCCAACTATGGGGAACAGATA
genomic: CTCTTGAAGTTAGGATTCCAGCTGAGCATGTTACTGCTACAAATCGCCAAgtaagtcgaa ... tcgtgtgcagGTAAGAGGTGGCCAACTATGGGGAACAGATA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGATTTGTCTCATCCTGATAAAAGCGGTGATTTCGCTAATAATGGCCCCACTCTTGAAGTTAGGATTCCAGCTGAGCATGTTACTGCTACAAATCGCCAAgtaagtcgaatatatatccaaatttttctcataatcattttcattgtttttcttctagatgacttggtgcatatagttttagttccagtcttttgatctgtttaattcacttcgcctattaatttgagaaacacagctcccttgtttgttacttgctgagacatttggctcgtgtgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA