Sequence
atgc intronic sequence ATGC exonic sequenceGTTGGGAGCTTGATTAGTTTGACATCTAAGAGTGAGATCAGATACGAAGGGATCCTTTACAATATTAATACAGATGAATCCAGTATCGGACTTCAAAACGgtacgatccgtttccacttccgtttcgggattaccagatttgttaagtgttaattttggtggtgttttctctcggatttggtagaaactaatggtttctt...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G26110.2 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G26110.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA02G11300.1 (Glycine max), 5'ss of exon 1
GTTGGGAGCTTGATTAGTTTGACATCTAAGAGTGAGATCAGATACGAAGGGATCCTTTACAATATTAATACAGATGAATCCAGTATCGGACTTCAAAACGgtacgatccgtttccacttccgtttcgggattaccagatttgttaagtgttaattttggtggtgttttctctcggatttggtagaaactaatggtttctt-
||||||||||||| || ||||| |||||||||||||||||||||||||| || || ||||| || || || || || |||||||| || || |||||||| | | | | | || | | | || | | | | | | ||| |||| | | || | || | | |||||||
ATTGGGAGCTTGATAAGCTTGACCTCTAAGAGTGAGATCAGATACGAAGGCATACTCTACAACATCAACACCGAAGAGTCCAGTATTGGCCTCAGAAACGgtattcttctgctacccacttgtattttttccatgaatttcccttaatcctt-tctgggttttgttctttttcagtttaatttggttgctttggtttcaga
upper sequence: AT1G26110.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA02G11320.2 (Glycine max), 5'ss of exon 1
GTTGGGAGCTTGATTAGTTTGACATCTAAGAGTGAGATCAGATACGAAGGGATCCTTTACAATATTAATACAGATGAATCCAGTATCGGACTTCAAAACGgtacgatccg--tttccacttccgtttcgggattaccagatttgttaagtgttaattttggtggtgttttctctcggatttggtagaaactaatggtttctt--
||||||||||||| || ||||| |||||||||||||||||||||||||| || || ||||| || || || || || |||||||| || || |||||||| | | | ||||||| ||| | || | | | | || || | ||||| |||| | | || | || | | | |||||||
ATTGGGAGCTTGATAAGCTTGACCTCTAAGAGTGAGATCAGATACGAAGGTATTCTCTACAACATCAACACCGAAGAGTCCAGTATTGGCCTCAGAAACGgtattcttctgctacccacttcttttttcgtatga--atttccctcaatcctt--tcttggttttgttctttttcagtttaatttggctcctttggtttcagat
upper sequence: AT1G26110.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA01G22680.1 (Glycine max), 5'ss of exon 1
GTTGGGAGCTTGATTAGTTTGACATCTAAGAGTGAGATCAGATACGAAGGGATCCTTTACAATATTAATACAGATGAATCCAGTATCGGACTTCAAAACGgtacgatccg--tttccacttccgtttcgggattaccagatttgttaagtgttaattttggtggtgttttctctcggatttggtagaaactaatggtttctt----
||||||||||||| || ||||| |||||||||||||||||||||||||| || || ||||| || || || || || |||||||| || || ||| |||| | | | |||||| |||| | | | |||| | || | | ||| |||| | | || | || | |||||||
ATTGGGAGCTTGATAAGCTTGACCTCTAAGAGTGAGATCAGATACGAAGGCATTCTCTACAACATCAACACCGAAGAGTCCAGTATTGGCCTCAGAAATGgtattcttctgctacccacttttttttcaagga----atttcccttaattctt--tctgggttttgttctttttcagtttaattttgttgctttggtttcagatct
upper sequence: AT1G26110.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA04G17050.1 (Glycine max), 5'ss of exon 1
GTTGGGAGCTTGATTAGTTTGACATCTAAGAGTGAGATCAGATACGAAGGGATCCTTTACAATATTAATACAGATGAATCCAGTATCGGACTTCAAAACGgtacgatccgtttccacttccgtttcgggattaccagatttgttaagtg---ttaattttggtggtgttttctctcggatttggtagaaactaatggtttctt
||||||||||||| || ||||| |||||||||||||||||||||||||| || || ||||| || || || || || |||||||| || || |||||||| | | | | | |||| || | || | ||||| | | ||||| | || | || || || | | ||
ATTGGGAGCTTGATAAGCTTGACCTCTAAGAGTGAGATCAGATACGAAGGTATTCTCTACAACATCAACACCGAAGAGTCCAGTATTGGCCTCAGAAACGgtattcttctgctacccacttgttttttttttttttttccaatgaatttcccttaatcctttctgggttttgt-tcagtttcagtttaatttggttccttt--
upper sequence: AT1G26110.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv01s0011g02820.t01 (Vitis vinifera), 5'ss of exon 1
GTTGGGAGCTTGATTAGTTTGACATCTAAGAGTGAGATCAGATACGAAGGGATCCTTTACAATATTAATACAGATGAATCCAGTATCGGACTTCAAAACGgtacgatccgtttccacttccg---tttcgggattaccagatttgttaagtgttaattttggtggtgttttctctcggatttggtagaaactaatggtttctt
| ||||||||||||||||||||||| || || |||||||| ||||| || | || ||||| || || || || || ||||| |||||| | | |||||||| | |||| ||| || ||||| | | | | ||| || | || |||| |||| | ||| || || | | | || |
ATCGGGAGCTTGATTAGTTTGACATCCAAAAGCGAGATCAGGTACGAGGGCGTTCTCTACAACATCAACACCGAGGAGTCCAGCATCGGATTGCGAAACGgtatt-ttcgttatttcttgcggggtttcgtaactttc-gttttattttct-ttgatttcggtgttttttcgctgcgttttctctcaacttttcccaattggtMapped 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|301501034|gb|HO206574.1|HO206574EST: GATCCTTTACAATATTAATACAGATGAATCCAGTATCGGACTTCAAAACG TTCGATCATTTGGAACTGAAGGAAGGAAAAAAGATGGTCCACAAGTTCCTC
genomic: GATCCTTTACAATATTAATACAGATGAATCCAGTATCGGACTTCAAAACGgtacgatccg ... ttgtgtgtagTTCGATCATTTGGAACTGAAGGAAGGAAAAAAGATGGTCCACAAGTTCCTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTGGGAGCTTGATTAGTTTGACATCTAAGAGTGAGATCAGATACGAAGGGATCCTTTACAATATTAATACAGATGAATCCAGTATCGGACTTCAAAACGgtacgatccgtttccacttccgtttcgggattaccagatttgttaagtgttaattttggtggtgttttctctcggatttggtagaaactaatggtttctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG