Sequence
atgc intronic sequence ATGC exonic sequencegtaaaccgaatgcacatctaagaattaatctcagtttcctattcttttaaatgggtttctcatactctattataatcacacagATTGAAGTTGAAACCGTGGATAGAACCGGTACTTTCTTGGGATCCATGTGGGAATCGAGGACAAACGTGGCTACAGTTCTGCTTGAAGCTGGCTTAGCAA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G07350.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G07350.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA06G17050.4 (Glycine max), 3'ss of exon 12
gtaaaccgaatgcacatctaagaattaatctcagtttcctattcttttaaatgggtttctcatactctattataatcacacagATTGAAGTTGAAACCGTGGATAGAACCGGTACTTTCTTGGGATCCATGTGGGAATCGAGGACAAACGTGGCTACAGTTCTGCTTGAAGCTGGCTTAGCAA
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gtaaatc-aattcctttctgaactttagattc--ctgtatgcccgcttattttattgttaaatatttt-ttattttt-tgcagATAGAGGTTGAAACCGTTGATCGAACTGGAACATTCTTGGGATCCTTATGGGAGTCGAGGACCAACGTGGCAATTACACTGCTCGAAGCTGGTCTGGCAA
upper sequence: AT5G07350.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA04G38010.1 (Glycine max), 3'ss of exon 12
gtaaaccgaatgcacatctaagaattaa-tctcagtttcctattcttttaaatgggtttctcatactctattataatcacacagATTGAAGTTGAAACCGTGGATAGAACCGGTACTTTCTTGGGATCCATGTGGGAATCGAGGACAAACGTGGCTACAGTTCTGCTTGAAGCTGGCTTAGCAA
||||| | ||| | ||| | ||| | | || | || | ||| | || || || | |||| | ||||| || ||||||||||| |||||||| || || |||||||||||| | ||||| |||||||| || ||||| | |||||||||||||| | ||||
gtaaatc-aattcctttctgaactttaggttcctgtatgctgcttattttattg--ttaaatattttgtattgtt----tgcagATAGAGGTTGAAACCGTTGATAGAACTGGAACGTTCTTGGGATCCTTATGGGAGTCGAGGACCAATGTGGCAATTACACTGCTTGAAGCTGGTCTTGCAA
upper sequence: AT5G07350.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: Vv00s0283g00020.t01 (Vitis vinifera), 3'ss of exon 12
gtaaaccgaatgcacatctaagaattaatctcagtttcctattcttttaaatgggtttctcatactctattataatcacacagATTGAAGTTGAAACCGTGGATAGAACCGGTACTTTCTTGGGATCCATGTGGGAATCGAGGACAAACGTGGCTACAGTTCTGCTTGAAGCTGGCTTAGCAA
|| | | | | | ||| | | | | || ||| | ||| || | || | | | | | ||||||||||| ||||| || |||||||| || |||||||||||||| | ||||| | | || ||| |||| || ||||| ||||| ||||||
--gtactgt-tcctcttttaaactggtaacctgctggctggtttctttccctttgttgctaaatctattctttc-ttatgcagATTGAAGTGGAAACTGTTGATAGAACTGGAACTTTCTTGGGATCTCTATGGGAGGCAAAAACCAACATGGCAGTGACACTTCTTGAGGCTGGACTAGCAA
upper sequence: AT5G07350.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: Vv14s0068g00720.t01 (Vitis vinifera), 3'ss of exon 11
---------------------------gtaaaccgaatgcacatctaagaattaatctcagtttcctattcttttaaatgggtttctcatactctattataatcacacagATTGAAGTTGAAACCGTGGATAGAACCGGTACTTTCTTGGGATCCATGTGGGAATCGAGGACAAACGTGGCTACAGTTCTGCTTGAAGCTGGCTTAGCAA
|| | | | || || || || ||| | | | | | ||| | | | | | | |||||||||||||||||| || |||||||| || || ||||||||||| | |||||||| | |||||| ||||| || || || |||||||| | || |
gtcctgcccttctctattaaccttttggttgctctacttagcaaa-aaaaaaaaaaaaaggttgctcactttaagctacaagttgtttaagtctattctttcttatacagATTGAAGTTGAAACAGTAGATAGAACAGGGACATTCTTGGGATCTTTATGGGAATCAAAGACAAATATGGCTGTGGTACTTCTGGAAGCTGGACTGGCGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctcagtttcctattcttttaaatgggtttctcatactctattataatcacacagATTGAAGTTGAAACCGTGGATAGAACCGGTACTTTCTTGGGATCCATGTGGGAATCGAGGACAAACGTGGCTACAGTTCTGCTTGAAGCTGGCTTAGCAA
atactctattataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaccgaatgcacatctaagaattaatctcagtttcctattcttttaaatgggtttctcatactctattataatcacacagATTGAAGTTGAAACCGTGGATAGAACCGGTACTTTCTTGGGATCCATGTGGGAATCGAGGACAAACGTGGCTACAGTTCTGCTTGAAGCTGGCTTAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG