Sequence
atgc intronic sequence ATGC exonic sequenceATTGGCTCCTTGATGGTCTTGCTGGTTTCTTAACGGATATGTTTATCAAGCAGTTTTTGGGAAATAATGAAGCACGATATCGGAGATACAAGgtttatacctactactcgagttattcttccctgacgcctctgtaaccatttctgaactaagccatgaacctcatatctggattctcttttttttttttgatccaattgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G73960.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G73960.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA17G13080.1 (Glycine max), 5'ss of exon 8
ATTGGCTCCTTGATGGTCTTGCTGGTTTCTTAACGGATATGTTTATCAAGCAGTTTTTGGGAAATAATGAAGCACGATATCGGAGATACAAGgtttatacctactactcgagttattcttccctgacgcctctgtaaccatttctgaactaagccatgaacctcatatctggattctcttttttttttttgatccaattgcag
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AGTGGCTCTTGGATGGACTTGCTGGTTTCTTGACAGATTTTTTTATTAAGAAACATTTGGGAAATAATGAGGCACGGTACAGGAGATACAAGgtttgtttttctttcttg-gttagtctgatctatgtgaaggttaacttatcatgcattagactgtaaaaaaattatg-aacttgttgttctctttattgctg---------
upper sequence: AT1G73960.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA05G07920.1 (Glycine max), 5'ss of exon 8
ATTGGCTCCTTGATGGTCTTGCTGGTTTCTTAACGGATATGTTTATCAAGCAGTTTTTGGGAAATAATGAAGCACGATATCGGAGATACAAGgtttatacctactactcgagttattcttccctgacgcctctgtaaccatttctgaactaagccatgaacctcatatctggattctcttttttttttttgatccaattgcag
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AGTGGCTCTTGGATGGACTTGCTGGTTTCTTGACAGATTTTTTTATTAAGAAACATTTGGGAAACAATGAGGCACGGTACAGGAGATACAAGgtttgttttcctttcttg-gttagtctgatct-atgtgaaaattaacttatcatgact--gtcaaaaaattatgaacttg-ttctcttgattgctgtctaaaaaa------
upper sequence: AT1G73960.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv17s0000g04200.t01 (Vitis vinifera), 5'ss of exon 8
ATTGGCTCCTTGATGGTCTTGCTGGTTTCTTAACGGATATGTTTATCAAGCAGTTTTTGGGAAATAATGAAGCACGATATCGGAGATACAAGgtttatacctactactcgagttattcttccctgacgcctctgtaaccatttctgaactaagccatgaacctcatatctg-gattctcttttttttttttgatccaattgcag
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AGTGGTTGTTGGATGGTCTTGCTGGTTTTCTGACTGATTCATTTGTTAAGCGATTTCTGGGAAATAATGAGGCACGCTACCGGAGATACAAGgtttg--ctttcttatgggggctttcacatttggtttaccttatataagttgtcttttgattgacttatataacattagtgaatttaatcacatcaccaagt----------Mapped 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|125319171|gb|EL333256.1|EL333256EST: TTATCAAGCAGTTTTTGGGAAATAATGAAGCACGATATCGGAGATACAAG GCAAATTGTGCTGTCTGTAAAGCT
genomic: TTATCAAGCAGTTTTTGGGAAATAATGAAGCACGATATCGGAGATACAAGgtttatacct ... ccaattgcagGCAAATTGTGCTGTCTGTAAAGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTGGCTCCTTGATGGTCTTGCTGGTTTCTTAACGGATATGTTTATCAAGCAGTTTTTGGGAAATAATGAAGCACGATATCGGAGATACAAGgtttatacctactactcgagttattcttccctgacgcctctgtaaccatttctgaactaagccatgaacctcatatctggattctcttttttttttttgatccaattgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT