Sequence
atgc intronic sequence ATGC exonic sequenceCCTGAGAAAAGAAACCCTGGACTGACTCCAATGGATTGGGTCAAATTTCTAATATCTGCAGTAGTTGGTCTGgttggtcttcttggcagattcttttcttttgttgcagttcatgtttacatgtctttcttggttatcatatgactttttgtacag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G19340.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G19340.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: LOC_Os11g32490.1 (Oryza sativa), 5'ss of exon 10
CCTGAGAAAAGAAACCCTGGACTGACTCCAATGGATTGGGTCAAATTTCTAATATCTGCAGTAGTTGGTCTGgttggtcttcttggcagattcttttcttttgttgcagttcatgtttacatgtctttcttggttatcatatgactttttgtacag
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CCAGAGAAGAAGAACCCTAGTTTGACTCCAATGGATTGGGTGAAATTTCTTATTTCTGCTGTGTTAGGTTTGgtatgtgcctaatgctctaaatgtccaaccatgatggtaagttaatctttgagcatctaaatagccattttcttttcag-----
upper sequence: AT3G19340.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA16G05180.1 (Glycine max), 5'ss of exon 10
CCTGAGAAAAGAAACCCTGGACTGACTCCAATGGATTGGGTCAAATTTCTAATATCTGCAGTAGTTGGTCTGgttggtcttcttggca-gattcttttcttttgttgcagt-tcatgtttacatgtctttcttggtta--tcatatgactttttgtacag
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CCAGAAAAGAAAAACCCTGGATTAACTCCAATGGATTGGGTCAAGTTTCTTGGATCAGCTGTAGTTGGTCTGgttagtcttttgacctcaatttagtgtttctgtttttgtgttattgtttttcttcttcctgaacaaatgcatctaatgttcttcacag
upper sequence: AT3G19340.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA02G07370.1 (Glycine max), 5'ss of exon 10
CCTGAGAAAAGAAACCCTGGACTGACTCCAATGGATTGGGTCAAATTTCTAATATCTGCAGTAGTTGGTCTGgttggtcttct--tggcagatt---cttttcttt--tgttgcagttcat-gtttacatgtctttcttggttatcatatgactttttgtacag
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CCAGAAAAGAGAAATCCTGGATTGACTCCAATGGATTGGGTCAAGTTTCTTGCATCTGCTATAGTTGGGCTGgttagtttttcaattacaagttgagtttttctaccatgttattgttctttgccatcatgtattaatgcattga-atatgttttacttcacag
upper sequence: AT3G19340.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA19G27800.1 (Glycine max), 5'ss of exon 10
CCTGAGAAAAGAAACCCTGGACTGACTCCAATGGATTGGGTCAAATTTCTAATATCTGCAGTAGTTGGTCTGgttggtcttcttggcagattct----tttcttttgttgcagt-tcatgtttacatgtctttcttggttatcatatgactttttgtacag
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CCAGAAAAGAAAAACCCTGGATTAACTCCAATGGATTGGGTCAAGTTTCTTGGATCAGCTATAGTTGGTTTGgttagttttttaacctcaatttagtgtttccattttagcgatattgtttttcttcatcctgaacaaatg-catataatgttcttcacagMapped 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|86055111|gb|DR350868.1|DR350868EST: TGACTCCAATGGATTGGGTCAAATTTCTAATATCTGCAGTAGTTGGTCTG GTAGCGGTGCTTACTTCGGTTGAGATGCCTAAATCAGATCCATGGGTAATT
genomic: TGACTCCAATGGATTGGGTCAAATTTCTAATATCTGCAGTAGTTGGTCTGgttggtcttc ... ttttgtacagGTAGCGGTGCTTACTTCGGTTGAGATGCCTAAATCAGATCCATGGGTAATT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCTGAGAAAAGAAACCCTGGACTGACTCCAATGGATTGGGTCAAATTTCTAATATCTGCAGTAGTTGGTCTGgttggtcttcttggcagattcttttcttttgttgcagttcatgtttacatgtctttcttggttatcatatgactttttgtacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG