Sequence
atgc intronic sequence ATGC exonic sequenceGTTTGGAAGCTTACTTGCTTGTGAAAGCTTCCATGCTGATGTACATGCAGGAAACTTATGGCTGTTGCGTGATGGCCGGATTGGGTTTCTTGATTTTGgtaaatcatactctctcaagcctaattagtgcaacatttcttgcctacttacctctgactcatctattaatacagaaaaatgcagtctttttccataaatactcttcctttttattggtaattttttgtgtattcaagtaagtatccacatttttttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G05200.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G05200.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os07g12530.2 (Oryza sativa), 5'ss of exon 9
GTTTGGAAGCTTACTTGCTTGTGAAAGCTTCCATGCTGATGTACATGCAGGAAACTTATGGCTGTTGCGTGATGGCCGGATTGGGTTTCTTGATTTTGgtaaatcatactctctcaagcctaattagtgcaacatttcttgcctactt---------acctctgactcatctattaat-acagaaaaatgcagtctttt--tccataaatactcttcctttttattggt-aattttttgtgtattcaagtaagtat-ccacatttttttcag------------
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GTTTGGAAGCTTGATTTCATGTGAATCCTTCCATGCAGATGTGCATGCAGGAAATTTATGGTTGCTCCGAGATGGACGTGTTGGATTTCTTGATTTTGgtatgtaacatattctccaatctccacggtggcacggttgctctatatctcattaggcaatttaggatgcaccttgtatttgctaaaaaaggaaatattctggccttttaattcttacattatctattagtcaaaacacaaagtggtcaagaaagtttatcactattggttaataccatttcacag
upper sequence: AT5G05200.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G031780_T02 (Zea mays), 5'ss of exon 6
GTTTGGAAGCTTACTTGCTTGTGAAAGCTTCCATGCTGATGTACATGCAGGAAACTTATGGCTGTTGCGTGATGGCCGGATTGGGTTTCTTGATTTTGgtaaatcatactctctcaagcctaattagtgcaacatttcttgcctacttacctctgactcatctattaatacagaaaaatgc-agtctttttccataaatactcttcctttttattggtaattttttgtgtattcaagtaagtatccacatttttttcag
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GTTTGGAAGCTTAATTTCATGTGAATCCTTCCATGCTGATGTACATGCTGGAAACCTATGGTTGCTCCGTGATGGGCGAATTGGTTTTATTGATTTTGgtatgctgtagtaatttctcccta-tagtttttacattggttgattatcagtcggttacat---tgtaaatgtgatagaacatgaatcacatcacacaactaag---------------------------------------------------------
upper sequence: AT5G05200.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA14G36520.1 (Glycine max), 5'ss of exon 7
GTTTGGAAGCTTACTTGCTTGTGAAAGCTTCCATGCTGATGTACATGCAGGAAACTTATGGCTGTTGCGTGATGGCCGGATTGGGTTTCTTGATTTTGgtaaatcatactctctcaagcctaattagtgcaacatttcttgcctacttacctctgactcatctattaatacagaaaaatgcagtctttttccataaatactcttcctttttattggtaattttttgtgtattcaagtaagtatccacatttttttcag
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GTTTGGAAGTTTGCTTGCATGTGAATCTTTTCATGCAGATGTACATGCAGGAAATCTGTGGCTTCTACGTGATGGCCGTATTGGGTTTCTTGACTTCGgtatgcttgattatctttgtgcatatttata-gatatggttt---taactttttgttgtgcatttgtca---tatgttaatgttctaatgtttcaaaaaagtctata-----------------------------------------------------
upper sequence: AT5G05200.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv13s0067g03210.t01 (Vitis vinifera), 5'ss of exon 8
GTTTGGAAGCTTACTTGCTTGTGAAAGCTTCCATGCTGATGTACATGCAGGAAACTTATGGCTGTTGCGTGATGGCCGGATTGGGTTTCTTGATTTTGgtaaatcatactctctcaagcctaattagtgcaacatttcttgcctacttacctctgactcatctattaata-cagaaaaatgcagtctttttccataaatactcttcctttttattggtaattttttgtgtattcaagtaagtatccacatttttttcag
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GTTTGGTAGTTTGCTTGCCTGTGAAACCTTTCATGCAGATGTTCATGCAGGCAATTTGTGGTTGCTACGTGATGGCCGCATTGGGTTTCTTGATTTTGgtatgcattttctttttgcactgggttaactcatagtttggtttgttatagctttgatcttttccatacatggccaaacagtgta-tcttatatggtag-ta-----------------------------------------------------------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|125117587|gb|EL166670.1|EL166670EST: GGAAACTTATGGCTGTTGCGTGATGGCCGGATTGGGTTTCTTAGATTTTG GCATTGTTGGTCGGATATCCCCCAAAA
genomic: GGAAACTTATGGCTGTTGCGTGATGGCCGGATTGGGTTTCTT-GATTTTGgtaaatcata ... tttttttcagGCATTGTTGGTCGGATATCCCCCAAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTTGGAAGCTTACTTGCTTGTGAAAGCTTCCATGCTGATGTACATGCAGGAAACTTATGGCTGTTGCGTGATGGCCGGATTGGGTTTCTTGATTTTGgtaaatcatactctctcaagcctaattagtgcaacatttcttgcctacttacctctgactcatctattaatacagaaaaatgcagtctttttccataaatactcttcctttttattggtaattttttgtgtattcaagtaagtatccacatttttttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT