Sequence
atgc intronic sequence ATGC exonic sequenceTTTCGTTCTTGTTGTCGAAAACGTTTCTCCAGGAACAAAATTCGATCCCGTTCCTTCTTGCATTCCTGGGATTCTGATTACAGATGTCTCTAAGTCAATGgtaaaatatagttttgttgcgttcactatacagttatttcctccctcgtcttttccttaacttggaatgccattttttcttctctag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G30020.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G30020.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA15G17830.1 (Glycine max), 5'ss of exon 7
TTTCGTTCTTGTTGTCGAAAACGTTTCTCCAGGAACAAAATTCGATCCCGTTCCTTCTTGCATTCCTGGGATTCTGATTACAGATGTCTCTAAGTCAATGgta--------aaatatagttttgttgcgttcactatacagttatttcctccctcgtcttttccttaact--tggaatgccattttttcttctctag----
|| |||||| ||| ||||| |||||||| ||||||||||| ||||| || ||| | |||||||||||||||| || ||||||| | || |||| |||| | || ||| | | || | | | | | | | ||| || ||| || | || | | | || | ||
GTTTGTTCTTTGTGTTGAAAATGTTTCTCCTGGAACAAAATTTGATCCAGTCCCTGTTGGCATTCCTGGGATTCTTATCACAGATGCCAGCAAATCAAAGgtacttgaatcacatctaggtagataacgatgatga-atgctaactgtttccatctgttttcttgtagccgatgatttactacacagcctaattcagctgc
upper sequence: AT4G30020.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA09G06640.1 (Glycine max), 5'ss of exon 8
TTTCGTTCTTGTTGTCGAAAACGTTTCTCCAGGAACAAAATTCGATCCCGTTCCTTCTTGCATTCCTGGGATTCTGATTACAGATGTCTCTAAGTCAATGgtaaaatatagttttgttgcgttcactat--acagttatttcctccctcgtcttttccttaacttggaatgccattttttcttctctag--------------
|| |||||| ||| ||||| ||||| || ||||||||||| |||||||| ||| | |||||||||||||||| || ||||||| | || |||| |||| | | | | | | ||| | | | | | | || | || |||| | | ||| ||| || ||
ATTTGTTCTTTGTGTTGAAAATGTTTCCCCTGGAACAAAATTTGATCCCGTCCCTGTTGGCATTCCTGGGATTCTTATCACAGATGCCAGCAAATCAAAGgtac--ttgaatcacatctaggtagatatcgatgatgaatgctgactgtttccatctgttttcttgtagc-cgattatttactccacagcctaatattcagtt
upper sequence: AT4G30020.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv11s0103g00550.t01 (Vitis vinifera), 5'ss of exon 8
TTTCGTTCTTGTTGTCGAAAACGTTTCTCCAGGAACAAAATTCGATCCCGTTCCTTCTTGCATTCCTGGGATTCTGATTACAGATGTCTCTAAGTCAATGgtaaaa--tatagttttgttgcgttcactatacagttatttcctccctcgtcttttccttaacttgg--aatgccattttttcttctctag---------
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GTTTGTTCTTGCTGTGGAAAATGTTTCTCCAGGAACAAAGTTTGATCCTGTTCCTGTCAGTATTCCTGGGATTCTCATCACAGAAGTCAGCAAATCAATGgtaaatatcttaattcttcttctttaatgatatatatttccagtaggtagatagtggtccagtgtgactggcaccatctggaacatcccgctatcagttgMapped 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|124916068|gb|EH989942.1|EH989942EST: ATTCTGATTACAGATGTCTCTAAGTCAATG GATTTGATTGATTACTACAATGTCACAACGTCAAGAGATTGGATGGGAAGG
genomic: ATTCTGATTACAGATGTCTCTAAGTCAATGgtaaaatata ... tcttctctagGATTTGATTGATTACTACAATGTCACAACGTCAAGAGATTGGATGGGAAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTCGTTCTTGTTGTCGAAAACGTTTCTCCAGGAACAAAATTCGATCCCGTTCCTTCTTGCATTCCTGGGATTCTGATTACAGATGTCTCTAAGTCAATGgtaaaatatagttttgttgcgttcactatacagttatttcctccctcgtcttttccttaacttggaatgccattttttcttctctag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG