Sequence
atgc intronic sequence ATGC exonic sequenceGTTGTGAACCGATATATAGATGAAGGTGTGGCAGAGCTTGTTCCAGGAGTTCTATTTATTGATGAGgtattttcccaaataaagttttttttcattccactattgatcttgctcaggactcaggagcagtaagaatacctttgtttaattataaaacctcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G22330.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G22330.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA08G21830.1 (Glycine max), 5'ss of exon 7
GTTGTGAACCGATATATAGATGAAGGTGTGGCAGAGCTTGTTCCAGGAGTTCTATTTATTGATGAGgtattttcccaaataaagttttttttcattccactattgatcttgctcaggactcaggagcagtaagaatacctttgtttaattataaaacctcag
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GTTGTTAACCGATATATTGATGAAGGTGTAGCAGAGCTTGTTCCTGGAGTTCTATTCATTGATGAGgtgaccgtatctttaag----tttctcac-cgactaatgtctgcaaatactattgcatctaattaatcaaactttaatgcttttttacag------
upper sequence: AT5G22330.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA07G02170.1 (Glycine max), 5'ss of exon 7
GTTGTGAACCGATATATAGATGAAGGTGTGGCAGAGCTTGTTCCAGGAGTTCTATTTATTGATGAGgtattttcccaaataaagttttttttcattccactattgatcttgctcaggactcaggagcagtaagaatacctttgtttaattataaaacctcag
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GTTGTCAACCGATATATTGATGAAGGTGTAGCAGAGCTTGTTCCTGGAGTTCTATTCATTGATGAGgtgactgtgtctttaaa-tttctcaccaactaatgtctgcaaatactattgcatctaatttatcaaaaaatttaatgtttttttgcag--------
upper sequence: AT5G22330.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv06s0004g02910.t01 (Vitis vinifera), 5'ss of exon 7
GTTGTGAACCGATATATAGATGAAGGTGTGGCAGAGCTTGTTCCAGGAGTTCTATTTATTGATGAGgtattttcccaaataaagttttttttcattccactattgatcttgctcaggactcaggagcagtaagaatacctttgtttaattataaaacctcag
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GTTGTTAACCGTTACATCGATGAAGGTGTGGCAGAGCTTGTTCCTGGGGTCCTATTTATTGATGAGgtctttttctcatttaa-tcccttttcatctttggatt-atctc-caaattgcttttgtgtatcttggatttctgaacttattttcatag------
upper sequence: AT5G22330.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: PP1S40_80V6.1 (Physcomitrella patens), 5'ss of exon 2
GTTGTGAACCGATATATAGATGAAGGTGTGGCAGAGCTTGTTCCAGGAGTTCTATTTATTGATGAGgt--attttcccaaataaagttttttttcattccactattgatcttgctcaggactcaggagcag--taagaatacctttgtttaattataaaacctcag-------------------------------------------------------------
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GTAGTCAATAGAAACATTGATCAAGGTATGGCAGAGCTTGTTCCAGGTGTTCTCTTCATGGATGAGgtgaaccaatcatattacagcacacctacctagctcttctaaatatatggatcccacaattgcatattgtgagcaagttcaatttaattcaattccctgctgcatttttttttaagaatgatgacagaatggttatcttacaaatgtatggtgtgctgcag
upper sequence: AT5G22330.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: PP1S4_73V6.1 (Physcomitrella patens), 5'ss of exon 8
GTTGTGAACCGATATATAGATGAAGGTGTGGCAGAGCTTGTTCCAGGAGTTCTATTTATTGATGAGgtat-----tttcccaaataaagttttttttcattccactattgat---cttgctcaggactcaggagcagtaagaatacctttgtttaattataaaacctcag
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GTTGTTAACAGATATATTGATCAAGGTGTGGCAGAGCTTGTTCCAGGTGTTCTTTTCGTGGATGAGgtaaaccaattctttcagtctagttagctgggcttgcatgacgtgtttccttaattcgtaaactttattgatgggaaaccatgccattcaatttaatgct----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|116443984|gb|EG486576.1|EG486576EST: TAGATGAAGGTGTGGCAGAGCTTGTTCCAGGAGTTCTATTTATTGATGAG GTTCATATGCTTGATATGGAGTGCTTCTCATACTTGAACCGTGCTCTTGAG
genomic: TAGATGAAGGTGTGGCAGAGCTTGTTCCAGGAGTTCTATTTATTGATGAGgtattttccc ... aaaacctcagGTTCATATGCTTGATATGGAGTGCTTCTCATACTTGAACCGTGCTCTTGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTGTGAACCGATATATAGATGAAGGTGTGGCAGAGCTTGTTCCAGGAGTTCTATTTATTGATGAGgtattttcccaaataaagttttttttcattccactattgatcttgctcaggactcaggagcagtaagaatacctttgtttaattataaaacctcag
- - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - GAGCTT