Sequence
atgc intronic sequence ATGC exonic sequencegtgtggtcttcttacttacccttacaatgaatctgctgtttatagttgcgatgatgatgatgaatgaaatgttttcttcaacagGGAGACCGTGATCTCGCTGATTACATGAAAGATCGGAGCTTTCCTTCTAATTTGGAGTCCATCATGTTTGGGCGCGTTCTCCAAGGAGTCGAGTCTGTGA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G01920.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G01920.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA16G34620.1 (Glycine max), 3'ss of exon 2
-------gtgtggtcttc------ttacttacccttacaatgaatctgctgtttatagttgcgatgatgatgatgaatgaaatgttttctt---caacagGGAGACCGTGATCTCGCTGATTACATGAAAGATCGGAGCTTTCCTTCTAATTTGGAGTCCATCATGTTTGGGCGCGTTCTCCAAGGAGTCGAGTCTGTGA
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gtgttaaatgttatcttgaaaatataaattgaatttatcatctttgtatagtttattccttcatttacataaattaataggaggattgcctgtgtcacagGGAGATCGTACTCTTGCTGATTACATGAAAGATCGCAACTTTCCTTCAAACTTGGAATCTGTGATGTTTGGACGTGTCTTGCAAGGAGTAGACTCTTCGA
upper sequence: AT5G01920.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA03G00450.1 (Glycine max), 3'ss of exon 2
--------------------------------------------------------------------------------------------------gtgtggtcttcttacttacccttacaatgaatctgctgtttatagttgcgatgatgatgatgaatgaaatgttttcttca---acagGGAGACCGTGATCTCGCTGATTACATGAAAGATCGGAGCTTTCCTTCTAATTTGGAGTCCATCATGTTTGGGCGCGTTCTCCAAGGAGTCGAGTCTGTGA
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gtgctctagcttgtatttctgttgcataatggataaatatgcactatttaactgtcaggagttttataaatattttgttcaggtggtgctaaatgccatcttgaaaatataaattgaatttgtcatcttagtctagtttattccttcatttacttaaattaattcgagggttgcccctgtcgcagGGAGATCGTACTCTTGCTGATTACATGAAAGATCGCAACTTTCCTTCAAACTTGGAATCAGTGATGTTTGGACGTGTCTTGCAAGGTGTGGACTCTTCGAMapped 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|125093366|gb|EL150970.1|EL150970EST: CCAATACTATGTTTACTAAAGGCGGCAAATGGCTTGTCTGGAGGTTCGAG GGAGACCGTGATCTCGCTGATTACATGAAAGAT
genomic: CCAATACTATGTTTACTAAAGGCGGCAAATGGCTTGTCTGGAGGTTCGAGgtgtggtctt ... tcttcaacagGGAGACCGTGATCTCGCTGATTACATGAAAGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatctgctgtttatagttgcgatgatgatgatgaatgaaatgttttcttcaacagGGAGACCGTGATCTCGCTGATTACATGAAAGATCGGAGCTTTCCTTCTAATTTGGAGTCCATCATGTTTGGGCGCGTTCTCCAAGGAGTCGAGTCTGTGA
tgttttcttc CT-rich tract
tttatagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtggtcttcttacttacccttacaatgaatctgctgtttatagttgcgatgatgatgatgaatgaaatgttttcttcaacagGGAGACCGTGATCTCGCTGATTACATGAAAGATCGGAGCTTTCCTTCTAATTTGGAGTCCATCATGTTTGGGCGCGTTCTCCAAGGAGTCGAGTCTGTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG