Sequence
atgc intronic sequence ATGC exonic sequenceTCAGCTAAGCTTTGCAATTGCGAGAGACAAAATAAGAGAGAAAGTTGATTGGAGCATCAATATGTTCTTGGACTGTGAAAGACGCAACTTTGTGAAACAGgtaaaagcagaggaaactacagttttgtttcggttttgatttgtgaaaacctgagacttgtttatccttgatgacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G53040.2 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G53040.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA12G35300.1 (Glycine max), 5'ss of exon 7
TCAGCTAAGCTTTGCAATTGCGAGAGACAAAATAAGAGAGAAAGTTGATTGGAGCATCAATATGTTCTTGGACTGTGAAAGACGCAACTTTGTGAAACAGgt-aaaagcagaggaaactacagttttgtttcggttttgatttgtgaaaacctgagacttg--tttatccttgatgacag--------------------
|||| | |||||| | | | ||||||||||||| | ||| ||||||||| || || ||||| |||| ||||||||||| |||||||||| |||||| | | | | | | ||| || | | | ||||| || ||| || | | | | |
TCAGTTGAGCTTTTCCACAGTAAGAGACAAAATAATGGCAAAAACTGATTGGAGTATTAACATGTTTATGGATTGTGAAAGACGTAACTTTGTGATACAGgttagtatttgcgtcttgtcttgccgtgtgctatgttagttgttggaaaagctagtttttgaattcaacatgcacttccaaatgtctggggttttgtatg
upper sequence: AT1G53040.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA13G35210.1 (Glycine max), 5'ss of exon 8
TCAGCTAAGCTTTGCAATTGCGAGAGACAAAATAAGAGAGAAAGTTGATTGGAGCATCAATATGTTCTTGGACTGTGAAAGACGCAACTTTGTGAAACAGgtaaaagcagaggaaactacagttttgtttcggttttgatttgtgaaaacctgagacttgtttatccttgatgacag--------------------------
|||| |||||||| | | | ||||||||||||| | ||| ||||||||| || | ||||| ||||| ||||||||||| |||||||||| |||||| | | | | || || |||| | || | | | ||||| || | || || | | ||
TCAGTTAAGCTTTTCCACAGTAAGAGACAAAATAATGGCAAAAACTGATTGGAGTATTAGCATGTTTTTGGATTGTGAAAGACGTAACTTTGTGATACAGgtta--gtatttgtgtcttgccttgtgttgtg-ttcagttgttagaaaagctactagtttttaaattcagcatgcacttccaaatgtttgtactgttaaacagMapped 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|164200851|gb|ES093702.1|ES093702EST: GGAGCATCAATATGTTCTTGGACTGTGAAAGACGCAACTTTGTGAAACAG GTATATCATAGAGACGTTTTGCTGACCA
genomic: GGAGCATCAATATGTTCTTGGACTGTGAAAGACGCAACTTTGTGAAACAGgtaaaagcag ... ttgatgacagGTATATCATAGAGACGTTTTGCTGACCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCAGCTAAGCTTTGCAATTGCGAGAGACAAAATAAGAGAGAAAGTTGATTGGAGCATCAATATGTTCTTGGACTGTGAAAGACGCAACTTTGTGAAACAGgtaaaagcagaggaaactacagttttgtttcggttttgatttgtgaaaacctgagacttgtttatccttgatgacag
- - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA