Sequence
atgc intronic sequence ATGC exonic sequenceGTTTTCTAGTTGGTGCTATCAAATGTCCCCCAATAACGAGGGAGGAAATTGTAAATGCATGTGGAGTTGAGGATATTCATGATGGAACAAACTATTCCAGgtatcataggattgactgacatgcaacacacttctcaatttattgtctttgcatcccagacccctttcagtatctaatctgagctgcaacgtttgtcatgttttctatggcctcttattctctttctcttatttgctgttgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G19720.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G19720.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: LOC_Os12g07880.1 (Oryza sativa), 5'ss of exon 10
GTTTTCTAGTTGGTGCTATCAAATGTCCCCCAATAACGAGGGAGGAAATTGTAAATGCATGTGGAGTTGAGGATATTCATGATGGAACAAACTATTCCAGgtatcataggattgactgacatgcaacacacttctcaatttattgtctttgcatcccagacccctttcagtatctaatctgagctgcaacgtttgtcatgttttctatggcctcttattctctttctcttatttgctgttgtag
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GTCTGGTTGTTGGAAGTATTAGATGCCCTCCAATTACTAGGGAGGAAATTGTCAATGCTTGTGGTGTGGAAGATATTCATGATGGGACAAACTACTCCAGgtagtctca---ttccatatatcaggcatactt-tgactatatttatatagcacatttactcattttcaactttttttgttag-------------------------------------------------------------
upper sequence: AT3G19720.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM2G005848_T01 (Zea mays), 5'ss of exon 10
GTTTTCTAGTTGGTGCTATCAAATGTCCCCCAATAACGAGGGAGGAAATTGTAAATGCATGTGGAGTTGAGGATATTCATGATGGAACAAACTATTCCAGgtatcataggattgactgacatgcaacacacttctcaatttattgtctttgcatcccagacccctttca--gtatctaatctgagctgcaacgtttgtcatgttttctatggcctcttattctctttctcttatttgctgttgtag
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GTCTGGTAGTTGGTAGTACCAGGTGCCCTCCAATAACTAGGGATGAAATTGTCAATGCTTGTGGTGTTGAGGATATTCATGATGGTACAAACTACTCCAGgtactctctttcttagcgttat-caccatggtttgga--------tcctagcattctacattcttatgatcacattgaattaaaaggacatcactggaacagatttaaa-------------------------------------
upper sequence: AT3G19720.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA05G24890.1 (Glycine max), 5'ss of exon 6
GTTTTCTAGTTGGTGCTATCAAATGTCCCCCAATAACGAGGGAGGAAATTGTAAATGCATGTGGAGTTGAGGATATTCATGATGGAACAAACTATTCCAGgtatcataggattgactgacatgcaacacacttctcaatttattgtctttgcatcccagaccccttt-cagtatctaatctgagctgcaacgtttgtcatgttttctatggcctcttattctctttctcttatttgctgttgtag
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GTTTTGTGGTTGGAGGAATCAAGTGTCCCCCAATTACTCGGGAAGAAATTGTAAATGCATGTGGAGTTGAAGATATTCATGATGGAACAAACTACTCTAGgtaattctgtgt-gttttacctatt-cattcttgtatactactaattgttaaatattatatattaaaataatttttattttgagtaaccag------------------------------------------------------
upper sequence: AT3G19720.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA08G07990.2 (Glycine max), 5'ss of exon 8
GTTTTCTAGTTGGTGCTATCAAATGTCCCCCAATAACGAGGGAGGAAATTGTAAATGCATGTGGAGTTGAGGATATTCATGATGGAACAAACTATTCCAGgtatcataggattgactgacatgcaacacacttctcaatttattgtctttgcatcccagacccctttcagtatctaatctgagctgcaacgtttgtcatgttttctatggcctcttattctctttctcttatttgctgttgtag
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GTTTTTTGGTTGGAGGAATCAAGTGTCCCCCAATTACTCGGGAAGAAATTGTAAACGCATGTGGAGTTGAAGACATTCATGATGGAACAAACTACTCTAGgtaattctgtgtt---ttacctatt-cattcttgtgtgtattttacctattcattcttgtatactactaattgttaaat---gttaaaataatttttat--tttgagtaaccag------------------------------
upper sequence: AT3G19720.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: Vv12s0055g00490.t01 (Vitis vinifera), 5'ss of exon 10
GTTTTCTAGTTGGTGCTATCAAATGTCCCCCAATAACGAGGGAGGAAATTGTAAATGCATGTGGAGTTGAGGATATTCATGATGGAACAAACTATTCCAGgtatcataggattgactgacatgcaacacacttctcaatttattgtctttgcatcccagacccctttcagtatctaatctgagctgcaacgtttgtcatgttttctatggcctcttattctctttctcttatttgctgttgtag
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GTTTTGTGGTTGGAGGAATCAAATGTCCTCCAATTACAAGGGAAGAAATTGTTAATGCATGTGGGGTTGAAGATATTCATGATGGAACAAACTATTCAAGgtatccatggac---ctcaagcttaatcaaaactttg---taacaacttcttatcgtaatagcattgctttattt---ctaattttccttgtctcctatttttttcctgaaaaattag--------------------------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|116411661|gb|EG454253.1|EG454253EST: GTAAATGCATGTGGAGTTGAGGATATTCATGATGGAACAAACTATTCCAG AACAGCTTGTGTTATAGCAGTTGCGAAGGCTCGTGAGACGTTTGAACCTTT
genomic: GTAAATGCATGTGGAGTTGAGGATATTCATGATGGAACAAACTATTCCAGgtatcatagg ... gctgttgtagAACAGCTTGTGTTATAGCAGTTGCGAAGGCTCGTGAGACGTTTGAACCTTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTTTCTAGTTGGTGCTATCAAATGTCCCCCAATAACGAGGGAGGAAATTGTAAATGCATGTGGAGTTGAGGATATTCATGATGGAACAAACTATTCCAGgtatcataggattgactgacatgcaacacacttctcaatttattgtctttgcatcccagacccctttcagtatctaatctgagctgcaacgtttgtcatgttttctatggcctcttattctctttctcttatttgctgttgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA