Sequence
atgc intronic sequence ATGC exonic sequenceTGCATTGCATCCTCTGCGCCTTACTTTCCGAACACCAGAAGAAGGAGGAAGTTGCAAACTTATATTTAAGAAGGGAGATGATCTCCGGCAAGACCAACTGgtatattcggttcattacatcatattatctgtaatttttgtttatgttgtgattttttttcattactcgatag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G60490.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G60490.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: Vv01s0127g00430.t01 (Vitis vinifera), 5'ss of exon 12
---TGCATTGCATCCTCTGCGCCTTACTTTCCGAACACCAGAAGAAGGAGGAAGTTGCAAACTTATATTTAAGAAGGGAGATGATCTCCGGCAAGACCAACTGgtatattcggttcattacat---catattatctgtaatttttgtttatgttgtgattttttttcattactcgatag----------------------------
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GAGTGCTCTGCATCCTTTACGCCTGACTTTCCGAACAGCAAGT---GGTGGAAGTTGCAAGATCATATTTAAGAAGGGGGATGATATTCGACAAGACCAATTGgtaaatgctaagcattaatctcacatgcaaactccagattggactaacggaat-atttttttagagaggatgtaaactggctgtatattgatatgttcttttag
upper sequence: AT1G60490.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: PP1S58_188V6.1 (Physcomitrella patens), 5'ss of exon 12
---TGCATTGCATCCTCTGCGCCTTACTTTCCGAACACCAGAAGAAGGAGGAAGTTGCAAACTTATATTTAAGAAGGGAGATGATCTCCGGCAAGACCAACTGgtatattcggttca---ttacatcatattatctgta-atttttgtttatgttgtgattttttttc------attactcgatag-----------------
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GAGTGCATTGCACCCCCTGCGGCTCACTTTCCAAACA---AGAGATGGTGGAAAGTGTAAGTTAATTTTCAAGAAGGGAGATGATCTGAGGCAAGATCAACTGgtatgaggtctccaattttactctggattatttctgtatgtttacaattactgaaacttgcatactgaagtataagttgccagcagcttttttatgctgtMapped 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|116411922|gb|EG454514.1|EG454514EST: GTTGCAAACTTATATTTAAGAAGGGAGATGATCTCCGGCAAGACCAACTG GTTGTTCAAATGGTTTGGCT
genomic: GTTGCAAACTTATATTTAAGAAGGGAGATGATCTCCGGCAAGACCAACTGgtatattcgg ... tactcgatagGTTGTTCAAATGGTTTGGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCATTGCATCCTCTGCGCCTTACTTTCCGAACACCAGAAGAAGGAGGAAGTTGCAAACTTATATTTAAGAAGGGAGATGATCTCCGGCAAGACCAACTGgtatattcggttcattacatcatattatctgtaatttttgtttatgttgtgattttttttcattactcgatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA