Sequence
atgc intronic sequence ATGC exonic sequencegtaactctagatttatctatcacggattaatcacattatcgacttgcaattctgttctatgagattcatctgtttccactttggttcagCATCTTGATAGACCGGGTGTCAGCTTTTGCTCTCGTATGACTTATGATGATAATGCTATAACCAATGCTATTGAGATCTACAACAAACCCAG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G13340.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G13340.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA04G12500.1 (Glycine max), 3'ss of exon 6
----gtaactctagatttatctatcac--ggattaatcacattatc-gacttgcaattctgttctatgagatt--catctgtttc--cactttggttcagCATCTTGATAGACCGGGTGTCAGCTTTTGCTCTCGTATGACTTATGATGATAATGCTATAACCAATGCTATTGAGATCTACAACAAACCCAG
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gccagatgctgctaacttgtccctcataggaattgttcttggtattagaactatcaacagatatcaagattttatcaccttctttgttactggaatgcagCACCTAGATCGACCTGGTGTTAGCTTTTGCACGAGAACAACTTATGATGATAATGCTATCACCAATGCCATTGAGATTTATGATTGTCCTAG
upper sequence: AT3G13340.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv19s0015g01750.t01 (Vitis vinifera), 3'ss of exon 5
-gtaactctagatttatctatcacggattaatcacattatcga--cttgcaattctgttcta-tgagattcatctgttt-ccactttggtt------cagCATCTTGATAGACCGGGTGTCAGCTTTTGCTCTCGTATGACTTATGATGATAATGCTATAACCAATGCTATTGAGATCTACAACAAACCCAG
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gttacttctgtcatttttcataaccttgtagttattaaatcaggtcctgaaaattaattacactgagactgaggcattcaccccttttattggaatgcagTATCTAGATCGACCTGGAGTTAGTTTCTGTTCCAGGATAACTTATGACGATAATGCAATCACCAATGCTATTGAGATTTATGCCAGTTCCAGMapped 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|47831951|gb|CK121635.1|CK121635EST: AAGATGACTTTCTGGTTGCTGGCGGGTTTCAAGGAGAACTTATTTGCAAG CATCTTGATAGACCGGGTGTCAGCTTTTGCTCTCGTATGACTTATGATGAT
genomic: AAGATGACTTTCTGGTTGCTGGCGGGTTTCAAGGAGAACTTATTTGCAAGgtaactctag ... tttggttcagCATCTTGATAGACCGGGTGTCAGCTTTTGCTCTCGTATGACTTATGATGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attatcgacttgcaattctgttctatgagattcatctgtttccactttggttcagCATCTTGATAGACCGGGTGTCAGCTTTTGCTCTCGTATGACTTATGATGATAATGCTATAACCAATGCTATTGAGATCTACAACAAACCCAG
tctgtttccacttt CT-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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaactctagatttatctatcacggattaatcacattatcgacttgcaattctgttctatgagattcatctgtttccactttggttcagCATCTTGATAGACCGGGTGTCAGCTTTTGCTCTCGTATGACTTATGATGATAATGCTATAACCAATGCTATTGAGATCTACAACAAACCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC