Sequence
atgc intronic sequence ATGC exonic sequenceAAATACAAGGATGAGTTCGAGAAAGAGAAAAGCATGATTGGAGGTTCTTTGGGTGACAAAGCTGGTGAAGATCTGAAACTGAGAATCATCGAACATGTAAgtctctcaatttgtctttaagcttgtttacataagttgattgatgctttaaagttattaatttattctgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G09900.3 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G09900.3 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os03g63430.1 (Oryza sativa), 5'ss of exon 9
-AAATAC---AAGGATGAGTTCGAGAAAGAGAAAAGCATGATTGGAGGTTCTTTGGGTGACAAAGCTGGTGAAGATCTGAAACTGAGAATCATCGAACATGTA--Agtctctcaatttgtctttaagcttgtttacataagttgattgatgctttaaagttattaatttattctgcag----------
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GGAATTCTTTAAAGATGAATATGCGAATGAGAAGAATTTTCTCGGAGGAGCTTTGGGTGACAAAGCTGCAGAGGATCTGAAATTGAGGATCATTGAACATgtattgcttacttgactttatcgtatttctcttttggttccttgctttgtatttgtcagttgatttccagttctttgcttttgttcag
upper sequence: AT5G09900.3 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv07s0031g01970.t01 (Vitis vinifera), 5'ss of exon 9
----AAATACAAGGATGAGTTCGAGAAAGAGAAAAGCATGATTGGAGGTTCTTTGGGTGACAAAGCTGGTGAAGATCTGAAACTGAGAATCATCGAACATGTAAgtctctcaatttgtctttaagcttgtttacataagttgattgatgctttaaagttattaatttattctgcag-------------------------------
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GAATATGTTTAAGGATGAATTTGAAAACGAGAAGAACATGCTTGGGGGCTCCTTGGGTGACAAAGCTGCAGAAGATCTAAGACAGAGAATAATTGAACATgta-gtgtttctctgtacatttagttccataca-ataatttttttgatcatttgagttt--tgagttattgggtaattatttgtatgcaaaactgtcttcttttcagMapped 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|86083515|gb|DR379274.1|DR379274EST: GGGTGACAAAGCTGGTGAAGATCTGAAACTGAGAATCATCGAACA--T-- AATATCCTCGTTGTCTCAAAGTACTACGCAAGGATAACCTTAAAGAGACTT
genomic: GGGTGACAAAGCTGGTGAAGATCTGAAACTGAGAATCATCGAACATGTAAgtctctcaat ... tattctgcagAATATCCTCGTTGTCTCAAAGTACTACGCAAGGATAACCTTAAAGAGACTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAATACAAGGATGAGTTCGAGAAAGAGAAAAGCATGATTGGAGGTTCTTTGGGTGACAAAGCTGGTGAAGATCTGAAACTGAGAATCATCGAACATGTAAgtctctcaatttgtctttaagcttgtttacataagttgattgatgctttaaagttattaatttattctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA