Sequence
atgc intronic sequence ATGC exonic sequencegttggtcttatcttccttacttattctccaaattctttactgccttaattgatttgatgatggatttacccgactccagGTTCCTGGTGCTGCTGAGGCATCTATCAGAAATCTTCCTCCTTCTGCCATTGGGGATTCTGCTGGCTTTGATGCCATGGGCCTTTTAGCTGCAAACAAGG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G07350.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G07350.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA08G00910.1 (Glycine max), 3'ss of exon 5
---------------gttggtcttat--cttccttacttattctccaaattcttta--ctgccttaattgatttgatgatggatttac--ccgactccagGTTCCTGGTGCTGCTGAGGCATCTATCAGAAATCTTCCTCCTTCTGCCATTGGGGATTCTGCTGGCTTTGATGCCATGGGCCTTTTAGCTGCAAACAAGG
| || || |||||| || || | || ||| | || ||| | | | | ||| ||| | || | ||| |||||||||||||||||||||| ||||||||||| ||||| || |||||||| || ||| |||| |||| | || | |||| ||| |||||||
gaaaatagaaaaagcataattcccatcccttcctaacatagttaacatattatataatctgtcacgagtaaaccatatatgattttgttgctgattgcagATTCCTGGTGCTGCTGAGGCATCCATCAGAAATCTACCTCCATCGGCCATTGGTGACTCTAGCAACTTTAATGCTAGGGCTTTATTAGATGCTAACAAGG
upper sequence: AT5G07350.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA05G33320.1 (Glycine max), 3'ss of exon 5
---------------gttggtcttat--cttccttacttattctccaaattcttta--ctgccttaattgatttgatgatggatttac--ccgactccagGTTCCTGGTGCTGCTGAGGCATCTATCAGAAATCTTCCTCCTTCTGCCATTGGGGATTCTGCTGGCTTTGATGCCATGGGCCTTTTAGCTGCAAACAAGG
|| || ||| |||| | || || | || ||| | || ||| | | | ||| ||| ||| | || | ||| |||||||||||||||||||||| ||||||||||| || || || |||||||| || ||| |||| |||| | || | ||| ||| |||||||
agaaaatagaaaagcattattcctatcccttcttaacatagtgaacatattatataatctgtcatgagtgaaccatatatgattttgttgctgattgcagATTCCTGGTGCTGCTGAGGCATCCATCAGAAATCTACCACCATCGGCCATTGGTGACTCTAGCAACTTTAATGCTAGGGATTTATTACATGCTAACAAGG
upper sequence: AT5G07350.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA06G17050.4 (Glycine max), 3'ss of exon 5
------------------------gttggtcttatcttccttactta--ttctccaaattctttactgccttaattgatttgatgatggatttacc-cgactccagGTTCCTGGTGCTGCTGAGGCATCTATCAGAAATCTTCCTCCTTCTGCCATTGGGGATTCTGCTGGCTTTGATGCCATGGGCCTTTTAGCTGCAAACAAGG
|| | || ||| | ||| || | |||| | | | | || |||| |||| ||| || | |||||||| ||||||||||||||||| ||||||||| | || ||||||||| |||| || || | ||||||||| ||| ||||| |||||||||||
ctagaactggatgaaaattggagatgtgtagtgatggtccctggttaatttattgaaatccctcatctgcgta--caattt----atggttttgtggtgatttcagGTTCCCGGTGCTGCTGAGGCATCAATCAGAAATTTACCACCTTCTGCCCTTGGTGACCCTAGTAACTTTGATGCTATGACTTTTTTAAATGCAAACAAGGMapped 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|116439363|gb|EG481955.1|EG481955EST: TACAGCTTGAAGAGCTGGCCAAGCAGGAAGGATATGGTCGTTGGAGCAAG GTTCCTGGTGCTGCTGAGGCATCTATCAGAAATCTTCCTCCTTCTGCCATT
genomic: TACAGCTTGAAGAGCTGGCCAAGCAGGAAGGATATGGTCGTTGGAGCAAGgttggtctta ... ccgactccagGTTCCTGGTGCTGCTGAGGCATCTATCAGAAATCTTCCTCCTTCTGCCATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctccaaattctttactgccttaattgatttgatgatggatttacccgactccagGTTCCTGGTGCTGCTGAGGCATCTATCAGAAATCTTCCTCCTTCTGCCATTGGGGATTCTGCTGGCTTTGATGCCATGGGCCTTTTAGCTGCAAACAAGG
tttaccc CT-rich tract
ttaattgatttgat TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggtcttatcttccttacttattctccaaattctttactgccttaattgatttgatgatggatttacccgactccagGTTCCTGGTGCTGCTGAGGCATCTATCAGAAATCTTCCTCCTTCTGCCATTGGGGATTCTGCTGGCTTTGATGCCATGGGCCTTTTAGCTGCAAACAAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC