Sequence
atgc intronic sequence ATGC exonic sequence...tataatgtagaagttttcaggccaagaagttatggatgatgctaggtttctaaaaacatttctgatttaactgcatattattctggtcttttaagcgcagGAAACAGCAATGGCCGATCATCCTCACTCTGCAAATATTGGAGACTTGTTTTCAGAAGGTTCCCTCAACCCATATGCTGATGATCCCTATGCATTTGATT
Basic information
species | Arabidopsis thaliana |
transcript | AT1G22275.1 |
intron # | 17 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G22275.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GLYMA14G34810.1 (Glycine max), 3'ss of exon 17
--tataatgtagaa-gttttcaggccaagaagttatggatgatgctaggtttctaaaaacatttctgattta--actgcatattattctg-gtcttttaagcgcagGAAACAGCAATGGCCGATCATCCTCACTCTGCAAATATTGGAGACTTGTTTTCAGAAGGTTCCCTCAACCCATATGCTGATGATCCCTATGCATTTGATT
||| | | | | | | | |||| | | |||||| | || | | || | || | | | | |||| | | | | |||| | | | | ||||||| || |||||||||| || |||||||||||||| || || || |||||||| || |||||||||||||
tacatacttttgtttatggtaacatataagagtttttgcatatgctattatgctgtttcctggtgtgctgtagtaatactttttatattacatatcacagATGCAGAGCATCAAAGGAGGAGGCCATCCTCGTCCTTCAAATATTGGTGATTTGTTTTCAGAAGGGTCTCTTAATCCATATGCGGACGATCCCTATGCAT------
upper sequence: AT1G22275.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GLYMA13G01840.1 (Glycine max), 3'ss of exon 17
---tataatgtagaagttttcaggccaagaagttatggatgatgctaggtttctaaaaacatttctgatttaactgcatattattctggtcttttaagcgcagGAAACAGCAATGGCCGATCATCCTCACTCTGCAAATATTGGAGACTTGTTTTCAGAAGGTTCCCTCAACCCATATGCTGATGATCCCTATGCATTTGATT
| | || |||| || || | | | |||| | || | | || || || || | | | || || | | |||| | | | | |||||||| || ||| ||||| || |||||||||||||| || || || |||||||| || ||||||||||||||||||
aatggtgacatataagtgtttttgc--atatgctatgctgttttctggtgtgctgcaataatactctatatgatttttcttttttgcacatcactga-tgcagAGCATCAAAGGAGGAGGCCATCCTCATCCTTTAAACATTGGTGATTTGTTTTCAGAAGGGTCTCTTAATCCATATGCAGAGGATCCCTATGCATTTGAT-
upper sequence: AT1G22275.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GLYMA13G07980.1 (Glycine max), 3'ss of exon 10
-tataatgtaga-agttttcaggccaagaagttatggatgatgctaggtttctaaaaacatttctgatttaactgcatattattctggtcttttaagcgcagGAAACAGCAATGGCCGATCATCCTCACTCTGCAAATATTGGAGACTTGTTTTCAGAAGGTTCCCTCAACCCATATGCTGATGATCCCTATGCATTTGATT--
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ccatacttttgttaatggtgacatataagtgtttttgcatatgctgtgctg-tagtaatactct--atatgatttttcttttttgcacatcactga-tgcagagCATCAAAGGAGGAGGCCATCCTCATCCTTCAAACATTGGTGATTTGTTTTTAGAAGGGTCTCTTAATCCATATGCAGAGGATCCCTATGCATTTGATTAG
upper sequence: AT1G22275.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: Vv18s0001g05600.t01 (Vitis vinifera), 3'ss of exon 17
-----tataatgtagaagttttcaggccaagaagttatggatgatgctaggtttctaaaaacatttctgatt-taactgcatattattctggtcttttaagcgcagGAAACAGCAATGGCCGATCATCCTCACTCTGCAAATATTGGAGACTTGTTTTCAGAAGGTTCCCTCAACCCATATGCTGATGATCCCTATGCATTTGATT
| ||| || |||| ||| | || | | ||| | | | | | |||||| || | | | || | | || || | |||||||| | |||| ||| || ||||||| || || || ||||||||||| || || || |||||||| |||||||| |||||||||||||
actagttgaatataaaagt----gaaccatta--ttctttacagtgcaactatatttatttcctttctgcttatcggagtttgttctatttgtattccttgtgcagGAAATTAAGGGAGATAGGCATCTACACCCTTCAAATATAGGCGAGTTATTTTCAGAAGGCTCTCTTAATCCATATGCAGATGATCCTTATGCATTTGATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttctaaaaacatttctgatttaactgcatattattctggtcttttaagcgcagGAAACAGCAATGGCCGATCATCCTCACTCTGCAAATATTGGAGACTTGTTTTCAGAAGGTTCCCTCAACCCATATGCTGATGATCCCTATGCATTTGATT
tctttt CT-rich tract
taaaaacattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tataatgtagaagttttcaggccaagaagttatggatgatgctaggtttctaaaaacatttctgatttaactgcatattattctggtcttttaagcgcagGAAACAGCAATGGCCGATCATCCTCACTCTGCAAATATTGGAGACTTGTTTTCAGAAGGTTCCCTCAACCCATATGCTGATGATCCCTATGCATTTGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - caagaag
- - - - - - - - - - - - - - - - - - - - - - - - -ctaaaaa