Sequence
atgc intronic sequence ATGC exonic sequenceGCTGTGGAGGAAGCTCAACGAGCGATTAACGCAGCACATGTTGAAGCCGAGAGTAATGAGAATGGTATCGGTTTTGTCAAGCTTATGGGTCGTTACAGCGgtaagtctttgttttgaaacatacaacttaaaagaccttttcgatttgttactgactaatgctaggcgggtgttgtactacag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G56630.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G56630.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G443985_T02 (Zea mays), 5'ss of exon 9
GCTGTGGAGGAAGCTCAACGAGCGATTAACGCAGCACATGTTGAAGCCGAGAGTAATGAGAATGGTATCGGTTTTGTCAAGCTTATGGGTCGTTACAGCGgtaagtctttgttt--------tgaaacatac-aacttaaaagaccttttcgatttgt-tactgactaat--gctagg---cgggtgttgtactacag--
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GCAGTCGAGGAGGCTCAACGTGCAATAAATGCTGCTCATGTGGAGGCTGTAAGTGCTGAGAATGGTATAGGTCTTGTCAAGCTAATGGGTCGGCACAGTGgtaagcttctacgagaggcgaataaattatgctaatatacgatatctgtcaaatatatgtgtcaattaattaactaactcttgagtatttctctgctaat
upper sequence: AT5G56630.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: PP1S69_13V6.1 (Physcomitrella patens), 5'ss of exon 9
GCTGTGGAGGAAGCTCAACGAGCGATTAACGCAGCACATGTTGAAGCCGAGAGTAATGAGAATGGTATCGGTTTTGTCAAGCTTATGGGTCGTTACAGCGgtaagtctttgttttgaaacatacaacttaaaagaccttttcgatttgttactgactaatgctaggcgggtgttgtactacag--------------------------------------------------------------------------
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GCCGTGGAAGAAGCACAACGAGCAATCAATGCAGCTCATGTGGAAGCTGAGAGTACTCATAATGGTGTGGGGGTGGTCAAACTCATGGGTCGTTATAGCGgtaatgctctgactctgtacatgtttactaatccaattctgtgtttttactttggttaagatttacagttgaattcaataggaacttgtcattgatgatcgttggatttcggatgattccaaatgaacgtattcactgacacgattcatgggtgcagMapped 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|47831372|gb|CK121056.1|CK121056EST: GAGTAATGAGAATGGTATCGGTTTTGTCAAGCTTATGGGTCGTTACAGCG GGTACATAGCGATGTATGCTACATTAGCCAGCAGAGATGTTGACTGTTGCT
genomic: GAGTAATGAGAATGGTATCGGTTTTGTCAAGCTTATGGGTCGTTACAGCGgtaagtcttt ... tgtactacagGGTACATAGCGATGTATGCTACATTAGCCAGCAGAGATGTTGACTGTTGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCTGTGGAGGAAGCTCAACGAGCGATTAACGCAGCACATGTTGAAGCCGAGAGTAATGAGAATGGTATCGGTTTTGTCAAGCTTATGGGTCGTTACAGCGgtaagtctttgttttgaaacatacaacttaaaagaccttttcgatttgttactgactaatgctaggcgggtgttgtactacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT