Sequence
atgc intronic sequence ATGC exonic sequencegtaagtttggtttactgtaataaaaatcggttttcgcaccatccaaatcaaagaagagatcttcaagtttgtgtctttctcgcagATTCTGAAGGCGAAGATGAGCACGAAGACTGATTTGATCACAAAGGTAGATAGAAATGTAAAAGCACGTTGTTCTCTCTTTACATATTCGCAGATTCTTT
Basic information
species | Arabidopsis thaliana |
transcript | AT1G13580.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G13580.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G163426_T02 (Zea mays), 3'ss of exon 5
----gtaagt-ttggtttactgtaataaaaatcggttttcgcaccatccaaatcaaagaagagatcttcaagtttgtgt-ctttctcgcagATTCTGAAGGCGAAGATGAGCACGAAGACTGATTTGATCACAAAGGTAGATAGAAATGTAAAAGCACGTTGTTCTCTCTTTACATATTCGCAGATTCTTT
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gtcagtgaccattgtctctttttccttcatggtgttagatgttttacttcagcagcatcttatttactaaaaacgatatactattgtacagATTCTGAAGGCGAAGATGAGCATGAAGATTAACTTTTTAG------------------------------------------------------------
upper sequence: AT1G13580.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G163426_T01 (Zea mays), 3'ss of exon 5
----gtaagt-ttggtttactgtaataaaaatcggttttcgcaccatccaaatcaaagaagagatcttcaagtttgtgt-ctttctcgcagATTCTGAAGGCGAAGATGAGCACGAAGACTGATTTGATCACAAAGGTAGATAGAAATGTAAAAGCACGTTGTTCTCTCTTTACATATTCGCAGATTCTTT--
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gtcagtgaccattgtctctttttccttcatggtgttagatgttttacttcagcagcatcttatttactaaaaacgatatactattgtacagATTCTGAAGGCGAAGATGAGCATGAAGATTAACTTTTTAGGTTGAATGATTA--ACTGAAGAACTACATTGTGTGATACCTGCAGCAAGGCACACCTTCTGAMapped 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|164115090|gb|ES044491.1|ES044491EST: GAAACAAATACAAGATAGAGGCAAGCTTAGTGAAGATGTCAGATCAG ATTCTGAAGGCGAAGATGAGCACGAAGACTGATTTGATCACAAAGG
genomic: GAAACAAATACAAGATAGAGGCAAGCTTAGTGAAGATGTCAGATCAGgtaagtttgg ... tttctcgcagATTCTGAAGGCGAAGATGAGCACGAAGACTGATTTGATCACAAAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttcgcaccatccaaatcaaagaagagatcttcaagtttgtgtctttctcgcagATTCTGAAGGCGAAGATGAGCACGAAGACTGATTTGATCACAAAGGTAGATAGAAATGTAAAAGCACGTTGTTCTCTCTTTACATATTCGCAGATTCTTT
tttgtgtctttctc CT-rich tract
aaatcaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtttggtttactgtaataaaaatcggttttcgcaccatccaaatcaaagaagagatcttcaagtttgtgtctttctcgcagATTCTGAAGGCGAAGATGAGCACGAAGACTGATTTGATCACAAAGGTAGATAGAAATGTAAAAGCACGTTGTTCTCTCTTTACATATTCGCAGATTCTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT