Sequence
atgc intronic sequence ATGC exonic sequenceTGTGCTGAAGAAGCTCACCGTCCTGTAGATTGTGACACTGTTTCTAAGTGGGTATTGAAGAATAGTGCTGAGTCGGAGAATATGAATTGgtacgttgatttatgagatatcgttgagatatgttgttgttgtgctcgaccttaaagggtgcttagattttttaaaatatttgggttctttataaataga...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G65430.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G65430.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM5G876621_T01 (Zea mays), 5'ss of exon 7
TGTGCTGAAGAAGCTCACCGTCCTGTAGATTGTGACACTGTTTCTAAGTGGGTATTGAAGAATAGTGCTGAGTCGGAGAATATGAATTGgtacgttg--atttatgagatatcgttgagatatgttgttgttgtgctcgaccttaaagggtgct--tagattttttaaaatatttgggttctttataaataga
|| | || |||||||| ||||| ||||| |||| ||||||||| |||||| | | ||||| ||||| ||||| ||||||||||||||||| |||||| | | | | || || ||| || | | || || |||| || | ||| | ||||| |
TGCACCGAGGAAGCTCATCGTCCAGTAGACTGTGCCACTGTTTCGAAGTGGATCCTCAAGAACAGTGCAGAGTCAGAGAATATGAATTGgtatagaagaatttatagttttttgccatcgggtctttaaactgca---gactttggattcttctattatatttgtttttttctttcttatatttatttttct-
upper sequence: AT1G65430.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G006428_T02 (Zea mays), 5'ss of exon 7
TGTGCTGAAGAAGCTCACCGTCCTGTAGATTGTGACACTGTTTCTAAGTGGGTATTGAAGAATAGTGCTGAGTCGGAGAATATGAATTGgtacgtt--gatttatgagatatcgttgagatatgttg-ttgttgtg---ctcgaccttaaagggtgcttagattttttaaaatatttgggttctttataaataga
|| | || |||||||| ||||| ||||| |||| ||||||||| |||||| | | ||||| ||||| ||||||||||||||||| ||||| ||| | | | | || | || | |||| | || || || | |||||| ||| || | | || |||| |
TGCACCGAGGAAGCTCATCGTCCAGTAGACTGTGCCACTGTTTCGAAGTGGATCCTCAAGAACAGTGCGGAGTCGGAGAATATGAACTGgtatagaaggataaagcacaagttttttaatagtgccgactgtttggagtttctactttggattagtcttagaaacactaaggtagt--gtttggttatgga----
upper sequence: AT1G65430.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv00s0207g00090.t01 (Vitis vinifera), 5'ss of exon 7
TGTGCTGAAGAAGCTCACCGTCCTGTAGATTGTGACACTGTTTCTAAGTGGGTATTGAAGAATAGTGCTGAGTCGGAGAATATGAATTGgt---acgttgatttatgagatatcgttgagatatgttgttgttgtgctcgaccttaaagggtgcttagattttt-taaaatatttgggttctttataaataga
||| | || ||||||||||||||||| ||||| | |||||| | |||||| | |||||||||||||||||||| ||||| |||||||||| || | | || | || |||| || || | | | || | | ||| |||| | | | | | | | |
TGTACAGAGGAAGCTCACCGTCCTGTTGATTGCGGCACTGTGGCCAAGTGGATTTTGAAGAATAGTGCTGAGTCTGAGAACATGAATTGgttgaacacaatatcacagtatctaaatgc-atatatttttttcctttcttaatttcttatttatctgtattaaggcaaaacgtatcagataatgctgatt---
upper sequence: AT1G65430.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: PP1S178_72V6.3 (Physcomitrella patens), 5'ss of exon 7
TGTGCTGAAGAAGCTCACCGTCCTGTAGATTGTGACACTGTTTCTAAGTGGGTATTGAAGAATAGTGCTGAGTCGGAGAATATGAATTGgtacgttgatttatgagatatcg-ttgagatatgttgttgttgtgctcgaccttaaagggtgcttagattttttaaaatatttgggttctttataaataga-
||| ||||| || || || ||||| |||||||| || || |||||| || |||||||| | || |||||||||||||||||||||||||| ||| | || | || | | ||||| || | | | ||| | | || || | | | |||| |
TGTCGGGAAGAGGCACATCGGCCTGTGGATTGTGAGACAGTCAACAAGTGGATACTGAAGAATTGCGCCGAGTCGGAGAATATGAATTGgtacgt--attggaaatatccagctttatgcactttgttctttgtaatgttttccgaaacaagttaaactgcatagaaattgacaactagtgataatgaaca
upper sequence: AT1G65430.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: PP1S156_28V6.1 (Physcomitrella patens), 5'ss of exon 7
TGTGCTGAAGAAGCTCACCGTCCTGTAGATTGTGACACTGTTTCTAAGTGGGTATTGAAGAATAGTGCTGAGTCGGAGAATATGAATTGgtacgt-tgatttatgagatatcgttgagatatgttg--ttgttgtgctcgaccttaaagggtgcttagattttttaaaatatttgggttctttataaataga
||| ||||| || || || ||||| ||||||||||| || |||||| ||||||||||| |||| ||||| ||||| ||||||||||| | | | |||| ||| || || ||| | || | || |||| | | | ||||||| || || |
TGTCGAGAAGAGGCACATCGGCCTGTGGATTGTGACACAGTCAACAAGTGGATATTGAAGAATTGTGCAGAGTCAGAGAACATGAATTGgtaagaactgtgcacagcttatctaatgtttatcttcgcttcctgtcccaagatcagaatattatttggattgtatgtag--attgggtttcagatgtattg-Mapped 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|124704071|gb|EH795473.1|EH795473EST: TCGGAGAATATGAATTG GATTTTGGCAAATTCCAAGCCCTGTCCAAAATGCAAACGGCCAATAGAGAA
genomic: TCGGAGAATATGAATTGgtacgttgat ... tgaatttcagGATTTTGGCAAATTCCAAGCCCTGTCCAAAATGCAAACGGCCAATAGAGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTGCTGAAGAAGCTCACCGTCCTGTAGATTGTGACACTGTTTCTAAGTGGGTATTGAAGAATAGTGCTGAGTCGGAGAATATGAATTGgtacgttgatttatgagatatcgttgagatatgttgttgttgtgctcgaccttaaagggtgcttagattttttaaaatatttgggttctttataaataga
- - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctcgacct