Sequence
atgc intronic sequence ATGC exonic sequenceCGCGAAGAGATTTTGGAACTCTACCTCCAAGGCAAACCTATGTCAGAAGATGTTGATGTTAAAGCAATTGCTCGTGGAACTCCTGGATTCAATGGTGCTGgtgagtttcttaaatctataactacagtttagtcaccctgaaattcagaagtgtcttcttttgtcactaacctatgaagattcaatgactcaccacatttttcccaatctcaccaaacttttttccag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G53170.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G53170.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA13G08160.1 (Glycine max), 5'ss of exon 12
CGCGAAGAGATTTTGGAACTCTACCTCCAAGGCAAACCTATGTCAGAAGATGTTGATGTTAAAGCAATTGCTCGTGGAACTCCTGGATTCAATGGTGCTGgtgagtttcttaaatctataactacagtttagtcaccctgaaattcagaagtgtcttcttttgtcactaacctatgaagattcaatgactcaccacatttttcccaatctcaccaaacttttttccag
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CGGCAAGAAATATTGGAACTCTATCTGCAAGATAAACCTATAGCTGATGATGTAGATGTTAAAGCAATTGCTCGTGGTACCCCAGGGTTTAATGGAGCAGgtgaattat---aatttatttatgtgagatgacttttttta--tcaatgcaaatcttatagtcctccaagtttctgaatgactttt--tctattatatactcccttaaactag---------------
upper sequence: AT5G53170.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA06G13140.1 (Glycine max), 5'ss of exon 12
CGCGAAGAGATTTTGGAACTCTACCTCCAAGGCAAACCTATGTCAGAAGATGTTGATGTTAAAGCAATTGCTCGTGGAACTCCTGGATTCAATGGTGCTGgtgagtttcttaaatctataactacagtttagtcaccctgaaattcagaagtgt-cttcttttgtcactaacctatgaagattcaatgactcaccacatttttcccaatctcaccaaacttttttccag
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CGACAAGAAATATTGGAGCTTTACCTTCAAGATAAACCATTGGCTGATGATATAGATATTAAATCAATTGCTCGTGGAACCCCAGGATTCAATGGGGCAGgtgaataatttt--tcaatacatgtgacatgaccctccttccattctttttcaaatttcattcacgactgtgttgtataattattccaaactag-----------------------------------
upper sequence: AT5G53170.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: Vv16s0050g02630.t01 (Vitis vinifera), 5'ss of exon 12
CGCGAAGAGATTTTGGAACTCTACCTCCAAGGCAAACCTATGTCAGAAGATGTTGATGTTAAAGCAATTGCTCGTGGAACTCCTGGATTCAATGGTGCTGgtgagtttc----ttaaatctat---aactacagtttagtcaccctgaaattcagaag----tgtct--tcttttgtcactaacctatgaagattcaatgac----tcaccacatttttcccaatctcaccaaacttttttccag---------
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CGTCAAGAGATATTGGAGCTCTATCTGCAGGATAAACCATTGTCTGATGATGTAGATGTCAAAGCAATTGCTCGTGGCACCCCAGGGTTCAATGGGGCTGgtgagttttctttttcattctattcaaatatcatttcattcatttagattctcaagagcagatgtccagcctatgaacgcatccctgcaaaaattggctggacatgtcaggacacactcatcaatgattctcatttctattgcttctcactcagMapped 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|125016416|gb|EL088685.1|EL088685EST: GAACTCCTGGATTCAATGGTGCTG ATCTTGCAAACCTGGTAAATATTGCTGCCATAAAAAGCAGCTGTTGAAGGT
genomic: GAACTCCTGGATTCAATGGTGCTGgtgagtttct ... ttttttccagATCTTGCAAACCTGGTAAATATTGCTGCCATAAAA-GCAGCTGTTGAAGGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CGCGAAGAGATTTTGGAACTCTACCTCCAAGGCAAACCTATGTCAGAAGATGTTGATGTTAAAGCAATTGCTCGTGGAACTCCTGGATTCAATGGTGCTGgtgagtttcttaaatctataactacagtttagtcaccctgaaattcagaagtgtcttcttttgtcactaacctatgaagattcaatgactcaccacatttttcccaatctcaccaaacttttttccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA