Sequence
atgc intronic sequence ATGC exonic sequencegtgagaggattcactttctgagtgttgtttctttctttatgaagaaacttaagtgtgctaatgatatcgtctctcttgatgcagGAGAAAGAGTCTTGGGATATGAACACACAGGAAAGGATAGAAGCTGCAGGCAAGAAGAAAGAAGAAGGCAATGTGTTGTTCAAAGCTGGAAAATACGCAA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G48570.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G48570.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA08G46090.2 (Glycine max), 3'ss of exon 8
--------------gtgagaggattca-ctttctgagtgttgtttctttctttatgaagaaacttaagtgtgctaatgata-tcgtctctcttgatgcagGAGAAAGAGTCTTGGGATATGAACACACAGGAAAGGATAGAAGCTGCAGGCAAGAAGAAAGAAGAAGGCAATGTGTTGTTCAAAGCTGGAAAATACGCAA
|| | | | | | | || | | | | | | | ||| | | |||| || || | ||| | |||||||| ||||| |||||| ||||||| | || | | |||||||| || ||||||||||||||||| ||||||||||| |||||||| || | ||||
acttcccttttttcgtttgcacacttgtccattttcatgctatggatgattattttggcagttttatctctagtaatcttaatctgttttctgccttcagGAGAAGGAGTCCTGGGATTTGAACACTGAAGAGAAACTTGAAGCTGCTGGTAAGAAGAAAGAAGAAGGAAATGTGTTGTTTAAAGCTGGTAAGCATGCAA
upper sequence: AT5G48570.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA16G10730.1 (Glycine max), 3'ss of exon 8
------gtgagaggattcactttctgagtgttgtttctttctttatgaagaaacttaagtgtgcta-------atgat--atcgtctct-cttgatgcagGAGAAAGAGTCTTGGGATATGAACACACAGGAAAGGATAGAAGCTGCAGGCAAGAAGAAAGAAGAAGGCAATGTGTTGTTCAAAGCTGGAAAATACGCAA
| || | | | || | ||| | | | | | || | ||| || || || | | | | | | ||||||| ||||| ||||| ||| |||||| || | ||| |||||||| || ||||||||||||||||| |||| || || |||||||| ||||| ||||
tatttaactgaatcatcaccctgccgaatcaatttttgagttccaaaagttcattgaattcctctacctataaataattaataatttttgcctcttttagGAGAAGGAGTCCTGGGACATGGACACACCAGAGAAGATTGAAGCTGCTGGTAAGAAGAAAGAAGAAGGAAATGCATTATTTAAAGCTGGTAAATATGCAA
upper sequence: AT5G48570.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA18G32830.1 (Glycine max), 3'ss of exon 8
--------------gtgagaggattcactttctgagtgttgtttctttctttatgaagaaacttaagtgtgctaatgatatcgtctctcttgatg-cagGAGAAAGAGTCTTGGGATATGAACACACAGGAAAGGATAGAAGCTGCAGGCAAGAAGAAAGAAGAAGGCAATGTGTTGTTCAAAGCTGGAAAATACGCAA-
|| | || |||| | | | | || | | | | | | ||| | ||||| |||| ||| | | | |||||||| ||||| |||||| ||||||| | || | | |||||||| || |||||||||||||| || ||||| ||||| |||||| | ||||| ||||
tactttttacatttgtactcttgtccattttcatactctggattatatatattttggcagttttatccctactaatcttatcctcttttctcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTAAGAAGAAAGAAGAGGGAAATGTCTTGTTTAAAGCTAGTAAATATGCAAG
upper sequence: AT5G48570.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA03G21690.1 (Glycine max), 3'ss of exon 8
-------------------------gtgagaggattcactttctgagtgttgtttc-tttctttatgaagaaacttaagtgtgctaatgatatcgtctctcttgatgcagGAGAAAGAGTCTTGGGATATGAACACACAGGAAAGGATAGAAGCTGCAGGCAAGAAGAAAGAAGAAGGCAATGTGTTGTTCAAAGCTGGAAAATACGCAA
| || | |||| | | || ||||| ||| | ||| | | | |||| | | | |||| || ||||||| || || ||||| ||| |||| | || | ||| |||||||| || ||||||||||||||||| |||| || || |||||||| ||||| ||||
tattttaactgaatcatcacccggcccaatcaattttagtttcaaaagatcattgaatttctctatccaaaaattaat---taataat--ttttgcctctttt-----agGAGAAGGAATCCTGGGACATGGACACGCCAGAGAAGATTGAAGCTGCTGGTAAGAAGAAAGAAGAAGGAAATGCATTATTTAAAGCTGGTAAATATGCAA
upper sequence: AT5G48570.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv00s0769g00010.t01 (Vitis vinifera), 3'ss of exon 8
------------------gtgagaggattcactttctgagtgttgtttct--ttctttatgaagaaacttaagtgtgctaatgatatcgtctctcttgatgcagGAGAAAGAGTCTTGGGATATGAACACACAGGAAAGGATAGAAGCTGCAGGCAAGAAGAAAGAAGAAGGCAATGTGTTGTTCAAAGCTGGAAAATACGCAA
|| | |||| |||| || | | | | | || || | || | | ||||| | | | | || | | | ||||| || || ||||||||||||||||| | || | ||| || ||||| ||||||||||| ||||||||||||||| | ||||| ||||| ||||| ||||
gtctgtaatatttttttcgtccaaatattctttttccacatgatatctatagtatttcataactaagttgacgtgtgtt----acctggcctattct--ttcagGACAAGGAATCTTGGGATATGAACACTGAAGAGAAGATTGAGGCTGCTGGCAAGAAGAAGGAAGAAGGCAATGTGCTATTCAAGGCTGGTAAATATGCAA
upper sequence: AT5G48570.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv00s0958g00020.t01 (Vitis vinifera), 3'ss of exon 4
------------------gtgagaggattcactttctgagtgttgtttct--ttctttatgaagaaacttaagtgtgctaatgatatcgtctctcttgatgcagGAGAAAGAGTCTTGGGATATGAACACACAGGAAAGGATAGAAGCTGCAGGCAAGAAGAAAGAAGAAGGCAATGTGTTGTTCAAAGCTGGAAAATACGCAA
|| | |||| |||| || | | | | | || || | || | | |||| | | | | || | | | ||||| || || ||||||||||||||||| | || | ||| || ||||| ||||||||||| ||||||||||||||| | ||||| ||||| ||||| ||||
gtctgtaatatttgtttcgtctaaatattctttttcctcatgatatctataatatttcataactaagttgacatgtgtt----acctggcctattct--ttcagGACAAGGAATCTTGGGATATGAACACTGAAGAGAAGATTGAGGCTGCTGGCAAGAAGAAGGAAGAAGGCAATGTGCTATTCAAGGCTGGTAAATATGCAAMapped 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|164069146|gb|ES164315.1|ES164315EST: CGCCAAACTCGACTGTATACTATGAGGTCGAGTTGGTATCTTTCATCAAG GAGAAAGAGTCTTGGGATATGAAC
genomic: CGCCAAACTCGACTGTATACTATGAGGTCGAGTTGGTATCTTTCATCAAGgtgagaggat ... cttgatgcagGAGAAAGAGTCTTGGGATATGAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctttctttatgaagaaacttaagtgtgctaatgatatcgtctctcttgatgcagGAGAAAGAGTCTTGGGATATGAACACACAGGAAAGGATAGAAGCTGCAGGCAAGAAGAAAGAAGAAGGCAATGTGTTGTTCAAAGCTGGAAAATACGCAA
tcgtctctctt CT-rich tract
taatgatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagaggattcactttctgagtgttgtttctttctttatgaagaaacttaagtgtgctaatgatatcgtctctcttgatgcagGAGAAAGAGTCTTGGGATATGAACACACAGGAAAGGATAGAAGCTGCAGGCAAGAAGAAAGAAGAAGGCAATGTGTTGTTCAAAGCTGGAAAATACGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA