Sequence
atgc intronic sequence ATGC exonic sequence...tgtgggagcaacagcaaaatctctgtttctcgtctcctggatttgtctttgatgtggggatttccaactaactctttccgtttttatgtcatcatgacagCTGCAAATGGCTGAGGAATGCATGAAGTATGCGATGGATTTGAGTGGTTTGTTACTTCTTTATTCTTCTCTGGGAGATGCTGAAGGTGTAACAAAACTTG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G52360.2 |
intron # | 19 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 19
tgtgggagcaacagcaaaatctctgtttctcgtctcctggatttgtctttgatgtggggatttccaactaactctttccgtttt------tatgtcatcatgacagCTGCAAATGGCTGAGGAATGCATGAAGTATGCGATGGATTTGAGTGGTTTGTTACTTCTTTATTCTTCTCTGGGAGATGCTGAAGGTGTAACAAAACTTG
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----agagtaa--gtaatgattctggaatgagggaacttaaatgttgattcttgttggaaatttctcttgatccattgtagctcaccatattttccattgttgcagTTAGAAATGGCTGAGGAATGTTTGAAGTATGCAATGGATTTGAGTGGCTTGTTACTGCTATATTCTTCTTTAGGAGATGCTGAAGGAATATCAAAACTTG
upper sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 19
tgtgggagcaacagcaaaatctctgtttctcgtctcctggatttgtctttgatgtggggatttccaactaactctttccgtttt------tatgtcatcatgacagCTGCAAATGGCTGAGGAATGCATGAAGTATGCGATGGATTTGAGTGGTTTGTTACTTCTTTATTCTTCTCTGGGAGATGCTGAAGGTGTAACAAAACTTG
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----agaataa-gttatgattctagaatgagggaacttaaatgt-tgattcttgttggaaacctctcttgacccgttgtagctcaccgtattttccattcttgcagTTAGAAATGGCTGAGGAATGTTTGAAGTATGCAATGGATTTGAGTGGCTTGTTACTGCTATATTCTTCTTTAGGAGATGCTGAAGGAATATCAAAACTTG
upper sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 19
------tgtgggagcaacagcaaaatctctgtttctcgtctc-ctggatttgtctttgatgtggggatttccaactaactctttccgtttttatgtcatcatgacagCTGCAAATGGCTGAGGAATGCATGAAGTATGCGATGGATTTGAGTGGTTTGTTACTTCTTTATTCTTCTCTGGGAGATGCTGAAGGTGTAACAAAACTTG
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ttcttttattcttgtcacaattaa--taatgattctggacacacttgatgt-tgattggtatagggtatctcttttttatctcttcattatc----tgttcttgcagTTAGAAATGGCCGAAGAGTGTTTAAAACAAGCAATGGATTTGAGTGGGTTATTGCTGCTATATTCTTCTTTAGGAGATGCTGAAGGAATATCAAAACTTG
upper sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 19
---tgtgggagcaacagcaaaatctctgtttctcgtctcctggatttgtctttgatgtggggatttccaactaactctttccgtttttatgtcatcatgacagCTGCAAATGGCTGAGGAATGCATGAAGTATGCGATGGATTTGAGTGGTTTGTTACTTCTTTATTCTTCTCTGGGAGATGCTGAAGGTGTAACAAAACTTG
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cttcgtgaattacccttcagtgctttagacaattatcacttgta--agtttttgtt-cattgatttaatcttttttttttttccctctgttatcttattgcagTTAGAAATGGCTGAGGAATGTTTAAAGCATGCGATGGACTTGAGTGGTTTGTTGCTGCTCTATTCTTCTTTAGGAGATGCTGACGGAATATCAAAACTTGMapped 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|124862187|gb|EH946624.1|EH946624EST: ATGTCCTCCGGAAAAG CTGCAAATGGCTGAGGAATGCATGAAGTATGCGATGGATTTGAGTGGTTT
genomic: ATGTCCTCCGG-AAAGgtatatattt ... atcatgacagCTGCAAATGGCTGAGGAATGCATGAAGTATGCGATGGATTTGAGTGGTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctttgatgtggggatttccaactaactctttccgtttttatgtcatcatgacagCTGCAAATGGCTGAGGAATGCATGAAGTATGCGATGGATTTGAGTGGTTTGTTACTTCTTTATTCTTCTCTGGGAGATGCTGAAGGTGTAACAAAACTTG
aactaac putative branch site (score: 1)
tttttatgt TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtgggagcaacagcaaaatctctgtttctcgtctcctggatttgtctttgatgtggggatttccaactaactctttccgtttttatgtcatcatgacagCTGCAAATGGCTGAGGAATGCATGAAGTATGCGATGGATTTGAGTGGTTTGTTACTTCTTTATTCTTCTCTGGGAGATGCTGAAGGTGTAACAAAACTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG