Sequence
atgc intronic sequence ATGC exonic sequencegttggtctttgtcttcgttttcttatattacaggttccaatttgatatatacaaaaatatcgcttcgcctgtgtcaccgaaaagttatatttatgttctccagGTTACTTTTCGGCATATGTTACCAAATTTCAACGAGTGCTGGTGGGACAGTATTGTTCTTGATATCTTGATATGCAACTGGTTTG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G15110.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G15110.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G110834_T02 (Zea mays), 3'ss of exon 7
gttggtctttgtcttcgttttcttatattacaggttccaatttgatatatacaaaaatatcgcttcgcctgtgtcaccgaaaagttatatttatgttctccagGTTACTTTTCGGCATATGTTACCAAATTTCAACGAGTGCTGGTGGGACAGTATTGTTCTTGATATCTTGATATGCAACTGGTTTG
|| | |||| | || | | | | | | ||| | | |||| | | ||| | | | |||| || ||| | ||| | |||||||| |||||||| ||||||||||||||||||||||||||||| ||||| || || || ||||| ||||| |||||||
----gtatac-tctttatgttgtggtcaaataactcttgacttgtgctttccaaaccca--ggttc-------ctaatgtagtgttacatgtat----tgcagCTCACTTTTCGCCATATGTTGCCAAATTTCAACGAGTGCTGGTGGGACAGCATTGTCCTAGACATATTGATCTGCAATTGGTTTG
upper sequence: AT1G15110.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G095757_T02 (Zea mays), 3'ss of exon 7
gttggtctttgtcttcgttttcttatattacaggttccaatttgatatatacaaaaatatcgcttcgcctgtgtcaccgaaaagttatatttatgttctccagGTTACTTTTCGGCATATGTTACCAAATTTCAACGAGTGCTGGTGGGACAGTATTGTTCTTGATATCTTGATATGCAACTGGTTTG
| | || |||| || | | | | | | ||| | | || | || | | ||| | |||| ||| || || ||| | |||||||| |||||||| ||||||||||| |||||||||||||| || ||||| || || || ||||||||||| |||||||
--------gtatactctttttgttgtggtcaaattcctgacttgtgctttccagac---tcaggttcctaatgt------agagttgtat----gtgctgcagCTCACTTTTCGTCATATGTTGCCAAATTTCAATGAGTGCTGGTGGGATAGCATTGTCCTAGACATATTGATATGCAATTGGTTTG
upper sequence: AT1G15110.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA10G41430.1 (Glycine max), 3'ss of exon 8
---------------------------------------------gttggtctttgtcttcgttttcttata-ttacaggttccaatttgatatatacaaaaatatcgcttcgcctgtgtcaccgaaaagttatatttatgttctccagGTTACTTTTCGGCATATGTTACCAAATTTCAACGAGTGCTGGTGGGACAGTATTGTTCTTGATATCTTGATATGCAACTGGTTTG
|| | | | || | | | || | | | || |||||||||| | | | | | | || | | ||| | | | || | || ||| |||||||| || ||||| ||||||||||||||||||||||||||||||||| ||||||| |||||||| ||||| |||||||
gtaatccctgatctgattaatacactctgattttttcacataggtgtggttgtgggttagtgcatccgtaaagcttgattttttgttttgatatatctatatcttttgaattgcttacat-acc---attctgtgttggcat-cttcagTACACTTTTCGTCACATGTTGCCAAATTTCAACGAGTGCTGGTGGGACAGTATTATTCTTGACATCTTGATCTGCAATTGGTTTG
upper sequence: AT1G15110.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA20G25830.2 (Glycine max), 3'ss of exon 10
-------------------------------------------gttggtctttgtcttcgttttcttatattacaggttccaattt-gatatatacaaaaatatcgcttcgcctgtgtcaccgaaaagttatatttatgttctccagGTTACTTTTCGGCATATGTTACCAAATTTCAACGAGTGCTGGTGGGACAGTATTGTTCTTGATATCTTGATATGCAACTGGTTTG
|| | | || || || ||| | ||| ||| ||||||| | ||||| || || | || || | | | || | ||| ||| ||||||||| || ||||| ||||||||||| ||||||||||||||||||||| ||||||| || ||||| ||||| |||||||
gtaagcccttatctgattaatacactccgattttttcacataggtgtggttatgggttagtgcatccataaagcttgtttttcttttgatatatcta----tatcgtttgaattgc-ttacataacatctgtgtt-gtaatcttcagTATACTTTTCGTCACATGTTGCCAAATTTCAATGAGTGCTGGTGGGACAGTATTATTCTTGACATTTTGATCTGCAATTGGTTTG
upper sequence: AT1G15110.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv01s0011g04370.t01 (Vitis vinifera), 3'ss of exon 8
-------------------------------------------------gttggtctttgtcttcgttttct-tatattacaggttccaatttgatatatacaaaaatatcgcttcgcctgtgtcaccgaaaagttatatttatgttctccagGTTACTTTTCGGCATATGTTACCAAATTTCAACGAGTGCTGGTGGGACAGTATTGTTCTTGATATCTTGATATGCAACTGGTTTG
|| || ||| | || | | | || | | || || | | |||| | | || | | | | | ||||| ||||| | | ||| ||||||| || |||||||||||||| ||||| ||||| ||||||||||||||| | || || || || | ||||| |||||||
gtcagtttcttggtctgataatgttattttgtgttttgcctcttaggttgtcatggttaatctaccttgtatgtctaagaatgtgctcatgtttctgttctcaaactgactgtttgagttctataaa-gttaagttttatttgtcaatttcagCTTACTTTCCGCCATATGTTACCAAACTTCAATGAGTGTTGGTGGGACAGTATTATCCTCGACATTTTAGTCTGCAATTGGTTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atacaaaaatatcgcttcgcctgtgtcaccgaaaagttatatttatgttctccagGTTACTTTTCGGCATATGTTACCAAATTTCAACGAGTGCTGGTGGGACAGTATTGTTCTTGATATCTTGATATGCAACTGGTTTG
tgttctcc CT-rich tract
aaaagttatatttatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggtctttgtcttcgttttcttatattacaggttccaatttgatatatacaaaaatatcgcttcgcctgtgtcaccgaaaagttatatttatgttctccagGTTACTTTTCGGCATATGTTACCAAATTTCAACGAGTGCTGGTGGGACAGTATTGTTCTTGATATCTTGATATGCAACTGGTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG