Sequence
atgc intronic sequence ATGC exonic sequenceGAATGATGAATTCTCAAGGGTTTTGCATCAGCAGATGGAGTTCTTCTCTAGTAATCCTAGTGTTGATACTCTCAATCGTGTTAGAGGAGAAGTCAGTGAGgtataattgtttcttcgtatgatctctagatattactcagctatatccattgaaaaggttgaatttttatgagttattacgccttcttggctcacacaggcttctttaaatctgtcttgggtgaaagatgaagtttgttatctcattgttgtgttatcgtgtttacag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G22360.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G22360.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA12G09680.1 (Glycine max), 5'ss of exon 2
GAATGATGAATTCTCAAGGGTTTTGCATCAGCAGATGGAGTTCTTCTCTAGTAATCCTAGTGTTGATACTCTCAATCGTGTTAGAGGAGAAGTCAGTGAGgtataattgtttcttcgtatgatctctagatattactcagctatatccattgaaaaggttgaatttttatgagttattacgccttcttggctcacacaggcttctttaaatctgtcttgggtgaaagatgaagtttgttatctcattgttgtgttatcgtgtttacag
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GAATGATGAATTTTCAAGGGTTTTGCATCAGCAGATGGAATTTTTTTCTAGTAATACGAGTGCCGATACCCTCAATCGTGTGAGGGGAGAAGTTGGTGAGgtaagtacatttcaaagaaaacttt------atctctcc-ctatttttgt-----atttctcctttatcctctccatttcatttatctagcccaaactgagaagtgagaaat--------------------------------------------------------
upper sequence: AT5G22360.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA11G18760.1 (Glycine max), 5'ss of exon 2
GAATGATGAATTCTCAAGGGTTTTGCATCAGCAGATGGAGTTCTTCTCTAGTAATCCTAGTGTTGATACTCTCAATCGTGTTAGAGGAGAAGTCAGTGAGgtataattgtttcttcgtatgatctctagatattactcagctatatccattgaaaaggttgaatttttatgagttattacgccttcttggctcacac-aggcttctttaaatctgtcttgggtgaaagatgaagtttgttatctcattgttgtgttatcgtgtttacag
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GAATGATGAATTTTCAAGGGTTTTGCATCAGCAGATGGAATTTTTTTCTAGTAATGCAAGCGCCGATACCCTCAATCGTGTGAGAGGAGAAGTTGGCGAGgcaagtacatttcaaagaa--aactttatccctccctattttgtctttattt------tttatcctct-----ccatttcatttatctagcacaaactgagaagtgacaaatc--------------------------------------------------------
upper sequence: AT5G22360.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv06s0080g00800.t01 (Vitis vinifera), 5'ss of exon 2
GAATGATGAATTCTCAAGGGTTTTGCATCAGCAGATGGAGTTCTTCTCTAGTAATCCTAGTGTTGATACTCTCAATCGTGTTAGAGGAGAAGTCAGTGAGg----tataattgtttcttcgtatgatctctagatattactcagctatatccattgaaaaggttgaatttttatga-gttattacgccttcttggctcacacaggcttctttaaatctgtc--ttgggtgaaagatgaagtttgttatctc-attgttgtgttatcgtgtttacag---------------------
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GAATGATGAATTTTCAAGGGTTTTACATCAGCAAATGGAATTCTTCTCTAGTAATCCTAGTGCAGATACTCTCAATCGTGTCAGAGGTGAAGTTGGTGAGgcaagtatcattttgtcattgtgggggtt-tgtgcatgatttatgtgtatatgtgcaggagat-gacctaatgcaacacttgtgtacatttctcacttgttacattatcttgaagtttgttctttttctttttgttaatacttaatatttttatggccatgatgttgtgctgacgacaactaaaaattgacattcag
upper sequence: AT5G22360.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: PP1S115_125V6.1 (Physcomitrella patens), 5'ss of exon 4
GAATGATGAATTCTCAAGGGTTTTGCATCAGCAGATGGAGTTCTTCTCTAGTAATCCTAGTGTTGATACTCTCAATCGTGTTAGAGGAGAAGTCAGTGAGgtataat-tgtttctt-cgtatgatctctagatattactcagctatatccattgaaaa--ggttgaatttttatgagttattacgccttcttggctcacacaggcttctttaaatctgt-cttgggtgaaagatgaagtttg-ttatctcattgttgtgttatcgtgtttacag
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GAATGACGAATTCTCCAGAGTTCTGCACCAGCAGATGGAATACTTCTCTAGCAATCCAAATGCAGATACGATAAACAGAGTGAAAGGGGAAATAGCAGAGgtatattatgttgcaagcgactcatgggctaggaataccttgctctttctacgcgtacttagctgaatcaccat---cttttaaatctagtgatctatcgcat-ctgctcaaggcttgtgcgtagcttagagctgttgtttaactaagtccct-ctgcatcag-----------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|19874718|gb|AU235549.1|AU235549EST: GTAATCCTAGTGTTGATACTCTCAATCGTGTTAGAGGAGAAGTCAGTGAG ATTCGATCGGTCATGGTAGAGAACATTGAGAAGATAATGGAAAGAGGTGAT
genomic: GTAATCCTAGTGTTGATACTCTCAATCGTGTTAGAGGAGAAGTCAGTGAGgtataattgt ... gtgtttacagATTCGATCGGTCATGGTAGAGAACATTGAGAAGATAATGGAAAGAGGTGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAATGATGAATTCTCAAGGGTTTTGCATCAGCAGATGGAGTTCTTCTCTAGTAATCCTAGTGTTGATACTCTCAATCGTGTTAGAGGAGAAGTCAGTGAGgtataattgtttcttcgtatgatctctagatattactcagctatatccattgaaaaggttgaatttttatgagttattacgccttcttggctcacacaggcttctttaaatctgtcttgggtgaaagatgaagtttgttatctcattgttgtgttatcgtgtttacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT