Sequence
atgc intronic sequence ATGC exonic sequenceAATTTAGATTCCAAGATTCATCACAACAACCTCCTCAATAATATACTTGCAAAGgtaccatcctttgcctgtcatcgagttgaatccgtgatcatgtgttattagggacgtcattgtgagatgtttttattggtaatgacacag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G27410.1 |
intron # | 14 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G27410.2 (Arabidopsis thaliana), 5'ss of exon 24
lower sequence: GRMZM2G108416_T01 (Zea mays), 5'ss of exon 14
AATTTAGATTCCAAGATTCATCACAACAACCTCCTCAATAATATACTTGCAAAGgtaccatcctttgcctgtcatcgagttgaatccgtgatcatgtgttattagggac-gtcattgtga-gatgtttttat-tggtaatgacacag-------------
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AGTATAGATTCCAAGATTCATCACAACAATCTTATCAACAATATTCTGGCAAAGgttca---ctttccttttgatt---tggagttcttaattagttcttagtatataccgtaactgtaatggagtttttgtctggactcgattttccatcctcgtgcag
upper sequence: AT5G27410.2 (Arabidopsis thaliana), 5'ss of exon 24
lower sequence: GLYMA10G29770.1 (Glycine max), 5'ss of exon 15
AATTTAGATTCCAAGATTCATCACAACAACCTCCTCAATAATATACTTGCAAAGgtaccatcctttgcctgtcatcgagttgaatccgtgatcatgtgttattagggacgtca--ttgtgagatgtttttattggtaatgacacag-------------------------------------------------------------------------------------------
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AATTTGGATTCAAAGATTCATCACAATAACCTCCTCAATAACATACTTGCAAAGgtat--tttttttcctctcgtgaatttttacatgtaattat-tacagcaaattgtatcaggtaatgaataatatgcaaccatgtggaaacggatgcttttaatggcttttcatgctaatatcctgtcattctgaataatatttcttgcagcttatcacaaaaaagtctttatttctgttacag
upper sequence: AT5G27410.2 (Arabidopsis thaliana), 5'ss of exon 24
lower sequence: GLYMA03G40000.2 (Glycine max), 5'ss of exon 14
AATTTAGATTCCAAGATTCATCACAACAACCTCCTCAATAATATACTTGCAAAGgtaccatcctttgcctgtcatcgagttga---------atccgtgatcatgtgttattagggacgtcattgtga---gatgtttttattggtaatgacacag
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AATTTGGATTCGAAGATTCATCACAATAACCTTCTCAATAACATACTTGCAAAGgtattttcctattctcctcgacatatttacgtgtactaatcaaccaaaatgtgtta--aatactgtgattggaagtggatgatttctattgtaacagtgatg
upper sequence: AT5G27410.2 (Arabidopsis thaliana), 5'ss of exon 24
lower sequence: GLYMA19G42530.1 (Glycine max), 5'ss of exon 14
AATTTAGATTCCAAGATTCATCACAACAACCTCCTCAATAATATACTTGCAAAGgtaccatcctttgcctgtcatcgagtt-----gaatccgtgatc--atgtgttattagggacgtcattgtgagatgtt--tttattggtaatgacacag-
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AATTTGGATTCGAAGATTCATCACAATAACCTTCTCAATAACATACTTGCAAAGgtattttcctattctcctcaacatatttacatgtactaataaactaaaatgtgttaaatactgtgattggaagtggatgatttctatgtaacaatgatgg
upper sequence: AT5G27410.2 (Arabidopsis thaliana), 5'ss of exon 24
lower sequence: EFJ34717 (Selaginella moellendorffii), 5'ss of exon 14
AATTTAGATTCCAAGATTCATCACAACAACCTCCTCAATAATATACTTGCAAAGgtaccatcctttgcc-tgtcatcgagttgaatccgtgatcatgtgttattagggacgtcattgtgagatgtttttattggtaatgacacag
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TGCCTAGATTCCAAGATTCACCATAACAATCTCATCAACAACATACTTGCGAAGgtctgtttttctgtgatgtccttttcgaagattcacgcata-gcgtttttcatag------------------------------------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|116467245|gb|EG509837.1|EG509837EST: TAGATTCCAAGATTCATCGCAACAACCTCCTCAATAATATACTTGCAAAG ATTGAAAGCAACAATGCCAACGTCGATGATGCAATCATGCTTGACAAGGAT
genomic: TAGATTCCAAGATTCATCACAACAACCTCCTCAATAATATACTTGCAAAGgtaccatcct ... aatgacacagATTGAAAGCAACAATGCCAACGTCGATGATGCAATCATGCTTGACAAGGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AATTTAGATTCCAAGATTCATCACAACAACCTCCTCAATAATATACTTGCAAAGgtaccatcctttgcctgtcatcgagttgaatccgtgatcatgtgttattagggacgtcattgtgagatgtttttattggtaatgacacag
- - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - GCAAAG