Sequence
atgc intronic sequence ATGC exonic sequencegtactgagattacttttcacctgaaaggttctctaacaaacaggattttgtggttgattttttttttttgttcttatgttgtgcagAAACTTTGCAAGTGGTTTACTCAATTATTATTAGCTGTTGAGTATCTGCATTCTAACTATGTTCTACATCGGGATCTAAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G44200.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G44200.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA13G38980.1 (Glycine max), 3'ss of exon 5
------gtactgagat-tactt--ttcacctgaaaggttctctaacaaacaggattttgtggttgattttttttttttgttcttatgttgtgcagAAACTTTGCAAGTGGTTTACTCAATTATTATTAGCTGTTGAGTATCTGCATTCTAACTATGTTCTACATCGGGATCTAAAG
| | |||| || || || | | | | | | || || |||||| | | || | | | | |||| | ||||||| |||||||||||||||||| || | || || || || || |||||||| || | |||| ||||||| |||||||||
gtatttttgcccagatatatttgattttcttaattcttatattttttgtttgaatattttggttgctcatgttgggtgcgtttgacgttgggaagAAACTCTGCAAGTGGTTTACTCAAATACTCTTGGCAGTGGAATACCTGCATTCAAATTTTGTTTTACATCGTGATCTAAAG
upper sequence: AT3G44200.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA12G31330.1 (Glycine max), 3'ss of exon 5
---gtactg-agat-tacttttcacctgaaaggttctctaacaaacaggattttgtgg-------ttgattttttttttt---tgt-tcttatgttgtgcagAAACTTTGCAAGTGGTTTACTCAATTATTATTAGCTGTTGAGTATCTGCATTCTAACTATGTTCTACATCGGGATCTAAAG
| || | || || ||| | | || ||||| | |||||| ||| || | | || ||| | | | ||||| ||||||| |||||||||||||||||| || | || || || || || |||||||| || | |||| ||||||| ||||| |||
gtatttttgcacatatatatttgatttttggaattttctaattcttatatttttgtttgaatattttggttactcatgttgggtgtgtttgacattgtgaagAAACTCTGCAAGTGGTTTACTCAAATACTTTTGGCAGTAGAATACCTGCATTCAAATTTTGTTTTACATCGTGATCTGAAG
upper sequence: AT3G44200.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv06s0009g00690.t01 (Vitis vinifera), 3'ss of exon 5
-------------gtactgagattacttttc-acctgaaaggttctctaacaaacaggattttgtggttgattttttttttttgttcttatgttgtgcagAAACTTTGCAAGTGGTTTACTCAATTATTATTAGCTGTTGAGTATCTGCATTCTAACTATGTTCTACATCGGGATCTAAAG
| | | | || || || | | || | | | || ||||| | | || | || | | | |||||||||||||| |||||| | ||||||||||| ||||| || ||||||||||| || ||||||||||| |||||||| ||
atctagcattgctctttcttgttcatttctctactttgctgcttggtcagcctatgattccttttggttatgactatgttgatattgtgaccactttcagAAACTTTGCAAATGGTTTGCGCAATTATTATTGGCTGTCGAATATCTGCATTCAAATTATGTTCTACACCGGGATCTTAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctaacaaacaggattttgtggttgattttttttttttgttcttatgttgtgcagAAACTTTGCAAGTGGTTTACTCAATTATTATTAGCTGTTGAGTATCTGCATTCTAACTATGTTCTACATCGGGATCTAAAG
ttttttttttttgttc CT-rich tract
ttgatttttttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactgagattacttttcacctgaaaggttctctaacaaacaggattttgtggttgattttttttttttgttcttatgttgtgcagAAACTTTGCAAGTGGTTTACTCAATTATTATTAGCTGTTGAGTATCTGCATTCTAACTATGTTCTACATCGGGATCTAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT