Sequence
atgc intronic sequence ATGC exonic sequenceAGAAACTAAGGAAAAACCAGGATGGTGCAGTGATCCACATTTACCTCCATGTGCTGCgtacggctctgtactctctttctctcattctctctctttgactaacctactgaagagtgcttatatcaattttcgataacaggtgtgttttcccacttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G08040.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G08040.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA13G39990.1 (Glycine max), 5'ss of exon 10
AGAAACTAAGGAAAAACCAGGATGGTGCAGTGATCCACATTTACCTCCATGTGCTGCgtacggctctgtactctctttctctcattctctctctttgactaacctactg-aagagtgcttatatcaattttcgataacaggtgtgttttcccacttgcag--------------------
| || | || |||||||| ||||| |||||||||||||| ||||| ||||||||||| | |||| ||||||| | | | || || | | | || || || | ||| | |||||| | | | || | | |
GGTGACAGAAGAGAAACCAGGCTGGTGTAGTGATCCACATTTGCCTCCTTGTGCTGCgtatg-ctct---ctctcttccaccctggttcaaagttgaattgatgtattgcaatatcatttacctagattttcttttctttctctacttagttaactttactatatcttttgttattttag
upper sequence: AT1G08040.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA12G29800.1 (Glycine max), 5'ss of exon 10
AGAAACTAAGGAAAAACCAGGATGGTGCAGTGATCCACATTTACCTCCATGTGCTGCgtacggctctgtactctctttctctcattctctctctttgactaacctactga-agagtgcttatatcaattttcgataacaggtgtgttttcccacttgcag--------------------
| || | || |||||||| ||||| |||||||||||||| ||||| ||||||||||| || ||||||| | | | || || | | || || | | ||| | |||||| | || | || | | |
GGTGACAGAAGAGAAACCAGGCTGGTGTAGTGATCCACATTTGCCTCCTTGTGCTGCgta------tgctctctcttccaccctggttcaaagttgaattggtgtattgctatatcatttacctagattttcttttctttgtctacttagttaactttattatatcttttgttattttag
upper sequence: AT1G08040.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: Vv06s0004g02700.t01 (Vitis vinifera), 5'ss of exon 10
AGAAACTAAGGAAAAACCAGGATGGTGCAGTGATCCACATTTACCTCCATGTGCTGCgtacgg---ctctgtactctctttctctcat-tctctctctttgactaacctac--tgaagagtgct------tatatcaattttcgataacag-gtgtgttttcccacttgcag---------------------------------------------------------------------------------
| ||| | || ||||| || ||||| ||||| |||||||||||||||||||| ||||| | |||| | |||| ||||| | ||| | || | | | ||||| | | || || ||| | | || | ||| |
AATTACTGAAGAGAAACCTGGGTGGTGTAGTGACCCACATTTACCTCCATGTGCAGCgtatgctttctctctgttctccctctcttgcatatctggtgtgcgtgaatttgtctttatgagtgttaaaacatgcataaacacaatgtaaaaataaatattcaaatatttgtaacatagggtaaatatgttgtcttgggacttgcattttctcccctctcccctcttaggcttacagttttctacattaattcagMapped 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|86085178|gb|DR380937.1|DR380937EST: AAGGAAAAACCAGGATGGTGCAGTGATCCACATTTACCTCCATGTGCTGC GTTTGTTGAGATTATGGCACCTGTATTTTCTAGAGAAGCATGGCGATGTGT
genomic: AAGGAAAAACCAGGATGGTGCAGTGATCCACATTTACCTCCATGTGCTGCgtacggctct ... ccacttgcagGTTTGTTGAGATTATGGCACCTGTATTTTCTAGAGAAGCATGGCGATGTGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAAACTAAGGAAAAACCAGGATGGTGCAGTGATCCACATTTACCTCCATGTGCTGCgtacggctctgtactctctttctctcattctctctctttgactaacctactgaagagtgcttatatcaattttcgataacaggtgtgttttcccacttgcag
- - - AAGGAA
- - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC