Sequence
atgc intronic sequence ATGC exonic sequencegtgagttatctttttgatctgtacaaacttttgttccctggtatattgtagtgactgatttcatgtatatccattttaagGTCATGAGAAACTCGGCTGAGAAGGTTAGACTCGCAGGGAATCCAAATGTGATGGTTTGTGAAAGAGGAACCATGTTTGGATACA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G16340.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G16340.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G168510_T02 (Zea mays), 3'ss of exon 7
------------------gtgagttatctttttgatctgtacaaacttttgttccctggtatattgta-gtgactgatttcatgtatatc--cattttaagGTCATGAGAAACTCGGCTGAGAAGGTTAGACTCGCAGGGAATCCAAATGTGATGGTTTGTGAAAGAGGAACCATGTTTGGATACA
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atattcctggttaaggcttgaagataattattttaccag-atttacttgtgttacttttcttactgcatgtgcttgtcaaagtgaacatttacatctccagGTTATGGTGAACTCTACAGAGAAAGTAAGGCTTGCTGGGAATCCAAATGTGATGGTCTGTGAGCGTGGTACCATGTTTGGCTACA
upper sequence: AT1G16340.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA18G48370.1 (Glycine max), 3'ss of exon 6
------------------------------------------gtgagttatctttttgatctgtacaaacttttgttccctggtatattgtagtgactg-atttcat-gtatatccattttaagGTCATGAGAAACTCGGCTGAGAAGGTTAGACTCGCAGGGAATCCAAATGTGATGGTTTGTGAAAGAGGAACCATGTTTGGATACA-
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ttagtatactatccaactttatgagttacaatttcaatagttagcaatgacttaacttaagcctcggaattagtgtctcctgatttttaccattattcatgtttcatagttttcatgtctataggTGATGACAAATTCAGCTGAAAAGGTTCGGTTAGCTGGAAATCCTAATGTGATGGTTTGTGAGAGAGGAACAATGTTTGGATACAG
upper sequence: AT1G16340.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA09G38010.1 (Glycine max), 3'ss of exon 7
--------------------------------------------gtgagttatctttttgatctgtacaaacttttgttc--cctggtatattgtagtgactg-atttcat-gtatatccattttaagGTCATGAGAAACTCGGCTGAGAAGGTTAGACTCGCAGGGAATCCAAATGTGATGGTTTGTGAAAGAGGAACCATGTTTGGATACA
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gttagtatattatccaactttatgagttaaaaatttacaatttcaatagttagcaatgacataacttaagcctcggaattagtctgatttttaccattatttatgtttcatagttttcatgtctatagGTGATGACAAATTCAGCTGAAAAGGTCCGGTTAGCTGGAAATCCTAATGTGATGGTTTGTGAGAGAGGAACAATGTTTGGATACAMapped 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|125245378|gb|EL259463.1|EL259463EST: AAAGGACAATTTTGTGGTCTACTCT GTCATGAGAAACTCGGCTGAGAAGGTTAGACTCGCAGGGAATCCAAATGT
genomic: AAAGGACAATTTTGTGGTC-ACTCTgtgagttatc ... ccattttaagGTCATGAGAAACTCGGCTGAGAAGGTTAGACTCGCAGGGAATCCAAATGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacttttgttccctggtatattgtagtgactgatttcatgtatatccattttaagGTCATGAGAAACTCGGCTGAGAAGGTTAGACTCGCAGGGAATCCAAATGTGATGGTTTGTGAAAGAGGAACCATGTTTGGATACA
gactgat putative branch site (score: 3)
tccatttt putative PPT
tatatccattttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttatctttttgatctgtacaaacttttgttccctggtatattgtagtgactgatttcatgtatatccattttaagGTCATGAGAAACTCGGCTGAGAAGGTTAGACTCGCAGGGAATCCAAATGTGATGGTTTGTGAAAGAGGAACCATGTTTGGATACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA