Sequence
atgc intronic sequence ATGC exonic sequenceACCAAGCTTGTAAGACTTGTAACAAGAAAGTGACAGAAGCACTTGACTCTGGTTACTGGTGTGAAGGATGCCAGAGAAAGTATGAAGAATGCAGCTTAAGgtaagagagatactcttttgattcataatcaaacttggttataatctttacttcctttctccgacatcttacaaatctgtccactttggttgtcgctag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G61000.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G61000.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv17s0000g07440.t01 (Vitis vinifera), 5'ss of exon 10
ACCAAGCTTGTAAGACTTGTAACAAGAAAGTGACAGAAGCACTTGACTCTGGTTACTGGTGTGAAGGATGCCAGAGAAAGTATGAAGAATGCAGCTTAAGgtaagagag--atactcttttgattcataatcaaacttggttataatctttacttcctttctccgacatcttacaaatctgtccactttggttgtcgctag------------
||| ||||||||||| || ||||||||||| ||||| || ||| ||||| || ||||||||||||||||| | || |||| || ||||| ||||||| || || || ||| || |||| || | ||| | || | | || || ||| |||| | ||
ACCGGGCTTGTAAGACATGCAACAAGAAAGTCACAGATGCTATTGGATCTGGGTATTGGTGTGAAGGATGCCAAAAGAATGATGATGAGTGCAGTTTAAGgtgagggattcatggaatttgaatcaataa--gaatccagcgatagtagttgaaattcatgaaagttgtcctatgaatgatgtttttttgttccattctgttttgttttccag
upper sequence: AT5G61000.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv03s0088g00230.t01 (Vitis vinifera), 5'ss of exon 6
ACCAAGCTTGTAAGACTTGTAACAAGAAAGTGACAGAAGCACTTGACTCTGGTTACTGGTGTGAAGGATGCCAGAGAAAGTATGAAGAATGCAGCTTAAGgtaagagag--atactcttttgattcataatcaaacttggttataatctttac--ttcctttctccgacatcttacaaatctgtccactttggttgtcgctag---------
|||| ||||||||||| || ||||||||||| ||||| || |||| ||||| || |||||||||||||| | | || |||| || ||||| | ||||| || || || ||| || |||| || | || ||| | |||| | | | | | | || | || || | | ||
ACCAGGCTTGTAAGACATGCAACAAGAAAGTCACAGATGCTATTGAATCTGGGTATTGGTGTGAAGGATGTGAAAAGAATGATGATGAGTGCAGTTGAAGgtgagggattcatggaatttgaatcaataa--gaattcagtgatagtatttaaaataggaaaagttgtcctatgaatgatgtttctttgttacattctgttatgttttccag
upper sequence: AT5G61000.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv11s0037g00650.t01 (Vitis vinifera), 5'ss of exon 5
ACCAAGCTTGTAAGACTTGTAACAAGAAAGTGACAGAAGCACTTGACTCTGGTTACTGGTGTGAAGGATGCCAGAGAAAGTATGAAGAATGCAGCTTAAGgtaagagag--atactcttttgattcataatcaaacttggttataatctttacttcctttctccgacatcttacaaatctgtccactttggttgtcgctag------------
||| ||||||||||| || ||||||||||| ||||| || ||| ||||| || ||||||||||||||||| | || |||| || ||||| |||||||||| || || |||| || |||| || | ||| | || | | || || | | ||||| | | ||
ACCGGGCTTGTAAGACATGCAACAAGAAAGTCACAGATGCTATTGGATCTGGGTATTGGTGTGAAGGATGCCAAAAGAATGATGATGAGTGCAGTTTAAGgtaagggattcatggaattttaatcaataa--gaatccagcgatagtagttgaaattcatgaaagttgtcctatgagtgatgtttctttgttcctttctgttttgttttccagMapped 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|86084110|gb|DR379869.1|DR379869EST: GGTTACTGGTGTGAAGGATGCCAGAGAAAGTATGAAGAATGCAGCTTAAG GTACATAATGGCGGTGAAAGTCACCGACTCATCTGGAGAAACTTGGATTTC
genomic: GGTTACTGGTGTGAAGGATGCCAGAGAAAGTATGAAGAATGCAGCTTAAGgtaagagaga ... ttgtcgctagGTACATAATGGCGGTGAAAGTCACCGACTCATCTGGAGAAACTTGGATTTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACCAAGCTTGTAAGACTTGTAACAAGAAAGTGACAGAAGCACTTGACTCTGGTTACTGGTGTGAAGGATGCCAGAGAAAGTATGAAGAATGCAGCTTAAGgtaagagagatactcttttgattcataatcaaacttggttataatctttacttcctttctccgacatcttacaaatctgtccactttggttgtcgctag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT