Sequence
atgc intronic sequence ATGC exonic sequenceTGCAGTTACTAACCGTGGTTCGACAACAGCAACAACCGATGAAACAAATGCAAGAGCTAGCATCTCAAGGATAGTATTGCTAGCTGAAGCTCTCTTCGAGgtaaatacatgttttcggtctccctactaacagctttttgccactatctttctttctcatgtatgctaaggatctacagtgcattcattttag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G45290.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G45290.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA09G35060.1 (Glycine max), 5'ss of exon 5
TGCAGTTACTAACCGTGGTT-CGACAACAGCAACAACCGATGAAACAAATGCAAGAGCTAGCATCTCAAGGATAGTATTGCTAGCTGAAGCTCTCTTCGAGgtaaatacatgttttcggtctccctactaacagctttttgccactatc-tttctttctcatgtatgctaaggatctacagtgcattcattttag
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TGCATGCAGAATCAATAGTCGTGATACCAATT-CAAATGATGATACCAATGCAAGAGCTAGCATATCAAGAATTGTTATGCTAGCTGAAGCTTTATTTGAGgtaagttca-------atgcactgtgttagttg-ttctggtggccatcgttttataattatacaagttgaatatttgta-catattttaattag
upper sequence: AT5G45290.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA01G35490.1 (Glycine max), 5'ss of exon 3
TGCAGTTACTAACCGTGGTT-CGACAACAGCAACAACCGATGAAACAAATGCAAGAGCTAGCATCTCAAGGATAGTATTGCTAGCTGAAGCTCTCTTCGAGgtaaatacatgttttcggtctccctactaacagcttt--ttgccactatctttctttctcatgtatgctaaggatctacagtgcattcattttag
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TGCATGCAGAATCAATAGTCGTGATACCAATT-CAAATGATGATACCAATGCAAGAGCTAGCATATCAAGAATTGTTATGCTAGCTGAAGCCTTATTTGAGgtaagttca-atgtacggtgt------tagctgttctggtggtcatt-cattttataattatacaagttgaatatttgta-catattttaattagMapped 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|164027643|gb|ES158379.1|ES158379EST: CTCTCTTCGAG GTTCTTGATGAAATTCATCAGCAATCTGTTGTCTTATCCTCTCAACAACCA
genomic: CTCTCTTCGAGgtaaatacat ... ttcattttagGTTCTTGATGAAATTCATCAGCAATCTGTTGTCTTATCCTCTCAACAACCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCAGTTACTAACCGTGGTTCGACAACAGCAACAACCGATGAAACAAATGCAAGAGCTAGCATCTCAAGGATAGTATTGCTAGCTGAAGCTCTCTTCGAGgtaaatacatgttttcggtctccctactaacagctttttgccactatctttctttctcatgtatgctaaggatctacagtgcattcattttag
- - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC