Sequence
atgc intronic sequence ATGC exonic sequencegtgaggtttgatgattttggatggttatggttagggtaatgtatgctcttgactggtgcttaatgttgcttctggtttctacagATGTTATTTTGCACAGCATGACAAGACGATGCTGATTGGAGCAGATCCTTCTCATGTTGAGGATAGATGTATCCGAGTGACCATTCACCATTGTTTCTTT
Basic information
species | Arabidopsis thaliana |
transcript | AT3G55140.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G55140.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA20G38490.1 (Glycine max), 3'ss of exon 2
-----------gtgaggttt-gatgattttggatggttatggttag--ggtaatgtatgctcttgactggtgcttaatgttgct--tctggtttctacagATGTTATTTTGCACAGCATGACAAGACGATGCTGATTGGAGCAGATCCTTCTCATGTTGAGGATAGATGTATCCGAGTGACCATTCACCATTGTTTCTTT
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tcctttcaagagagctgctcagtttattttagaggatctgaatctgttggtcaaatgtgcattattgtaatgggttacttagttggctttgtggcaccagGTGTTGCTTTGGGCAGCATGACAAGACCATGCTCATTGGAGCTGACCCGACTCACATTGGTGATAGATGCATCCGGGTGACCATTCACCATTGTTTCTTT
upper sequence: AT3G55140.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv00s0317g00150.t01 (Vitis vinifera), 3'ss of exon 2
gtgaggtttgatgattttggatggtta--tggttagggtaatgtatgctcttgactggtgcttaatg--ttgcttctggtttctacagATGTTATTTTGCACAGCATGACAAGACGATGCTGATTGGAGCAGATCCTTCTCATGTTGAGGATAGATGTATCCGAGTGACCATTCACCATTGTTTCTTT
| || ||| | || || | || | | || || || | ||| | ||| | ||| ||| | | ||||||||| || |||| ||||||||||| ||||| ||||||||||| |||||||| ||| ||| ||||| ||||| |||||||||||||||||||| |||
--gtgggttggttcttgcatatcacaaattgaattgaatattgcgagcgaaag-ttggactctgatggatcacttttggctac--cagATGTTACTTCTCACAACATGACAAGACAATGCTTATTGGAGCAGACCCTTCTCACATTGGGGACAGATGCATCCGGGTGACCATTCACCATTGTTTTTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttagggtaatgtatgctcttgactggtgcttaatgttgcttctggtttctacagATGTTATTTTGCACAGCATGACAAGACGATGCTGATTGGAGCAGATCCTTCTCATGTTGAGGATAGATGTATCCGAGTGACCATTCACCATTGTTTCTTT
tttctac CT-rich tract
taatgtat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaggtttgatgattttggatggttatggttagggtaatgtatgctcttgactggtgcttaatgttgcttctggtttctacagATGTTATTTTGCACAGCATGACAAGACGATGCTGATTGGAGCAGATCCTTCTCATGTTGAGGATAGATGTATCCGAGTGACCATTCACCATTGTTTCTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT