Sequence
atgc intronic sequence ATGC exonic sequencegtatgtttcatagctcttaatgggattttcaggggttgtttgttatatatgaaaacaatgagtagtgatgtcttgttggtttcagATTCCAGGAGAACCAAATATATCTTACATATGCTCAAGGTATTACAGAGCTCCTGAACTCATATTTGGAGCAACCGAATACACAAGTGCGATCGATATGT
Basic information
species | Arabidopsis thaliana |
transcript | AT3G61160.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G61160.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os10g37740.1 (Oryza sativa), 3'ss of exon 7
gtatgtttcatagctcttaatgggattttcaggggttgtttgttatatatgaaaacaatgagtagtgatgtcttgttggtttcagATTCCAGGAGAACCAAATATATCTTACATATGCTCAAGGTATTACAGAGCTCCTGAACTCATATTTGGAGCAACCGAATACACAAGTGCGATCGATATGT
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gtatgcttcttg--tcctgctagcatgtt----gattctgtgttgcacatgtatttgacaa-tgcagacactccatt----tcagGTTCCTGGTGAACCTAACATATCATACATTTGCTCGCGGTATTATAGGGCTCCTGAACTAATATTTGGAGCTACAGAGTATACCACAGCAATTGATATCT
upper sequence: AT3G61160.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G131853_T01 (Zea mays), 3'ss of exon 7
gtatgtttcatagctcttaatgggattttcaggggttgtttgttatatatgaaaacaatgagtagtgatgtcttgttggtttcagATTCCAGGAGAACCAAATATATCTTACATATGCTCAAGGTATTACAGAGCTCCTGAACTCATATTTGGAGCAACCGAATACACAAGTGCGATCGATATGT
|||| ||| | || ||| | | || | | || | | | ||| | ||| | || || |||||| | || || || || || ||||| ||||| ||||| ||||||| || ||||||||||| ||||||||||| || || || || | |||||||||||| |
gtatacttc-tctcttttagtttgtttct-----gctgaatatctt-catggatttaataaagtaaaatatcc-----atttcagGTCCCTGGTGAGCCTAACATATCGTACATTTGCTCGCGGTATTATAGGGCTCCTGAACTAATATTTGGAGCTACGGAGTATACCACTGCGATCGATATCT
upper sequence: AT3G61160.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G109624_T01 (Zea mays), 3'ss of exon 7
gtatgtttcatagctcttaatgggattttcaggggttgtttgttatatatgaaaacaatgagtagtgatgtcttgttggtttcagATTCCAGGAGAACCAAATATATCTTACATATGCTCAAGGTATTACAGAGCTCCTGAACTCATATTTGGAGCAACCGAATACACAAGTGCGATCGATATGT
||| ||| | || ||| | | | | |||| | | | ||| | ||| | || || |||||| | || || || || || ||||| ||||| ||||| ||||||| || ||||||||||| ||||||||||| || || || || | ||| |||||||| |
gtacacttc-tctcttttagtttgttcct-----gttgaatatctt-catggatttaataaagtaaaatatcc-----atttcagGTCCCTGGTGAGCCTAACATATCGTACATTTGCTCGCGGTATTATAGGGCTCCTGAACTAATATTTGGAGCTACGGAGTATACCACTGCAATCGATATCT
upper sequence: AT3G61160.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA18G45960.1 (Glycine max), 3'ss of exon 7
---gtatgtttcatagctcttaatgggattttcaggggttgtttgttatatatgaaaacaatgagtagtgatgtcttgttggtttcagATTCCAGGAGAACCAAATATATCTTACATATGCTCAAGGTATTACAGAGCTCCTGAACTCATATTTGGAGCAACCGAATACACAAGTGCGATCGATATGT-
|| ||||| | | | || | ||| | | |||| | | || | | ||||| | | || ||| || | || || ||||| || ||||| ||||||||||| ||||||| |||||||| ||||| |||||||| ||||| |||||||||| ||| || ||||| |
taagtttgttttttgtttttccttgtcactttgaaag-ttgtacaaca-gtttgtgtctga--gcttgtgatattattgtgcttt-aggTGCCTGGCGAACCCAACATATCGTACATATGCTCGCGGTATTATAGAGCTCCAGAACTTATATTTGGTGCAACAGAATACACAACTGCTATTGATATTTG
upper sequence: AT3G61160.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv15s0048g02010.t01 (Vitis vinifera), 3'ss of exon 7
gtatgtttcatagctcttaatgggattttcaggggttgtttgttatatatgaaaacaatgagtagtgatgtcttgttggtttcagATTCCAGGAGAACCAAATATATCTTACATATGCTCAAGGTATTACAGAGCTCCTGAACTCATATTTGGAGCAACCGAATACACAAGTGCGATCGATATGT
|||||||| || || | |||||| | |||| |||| | | ||| | | || |||| || | ||||| |||||||| ||||| || || |||||||||||||| || ||||| ||||| || ||||| || || ||||| |||| ||| || |||||||
gtatgtttattatcttccttggaatttttcaacactaatttgctata---gcaggttttgaacttcatttgcctgatggt---agGTGCCAGGTGAACCAAACATATCATATATTTGCTCAAGGTATTATAGGGCTCCAGAACTGATCTTTGGGGCTACAGAATATACAACTGCCATTGATATGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aggggttgtttgttatatatgaaaacaatgagtagtgatgtcttgttggtttcagATTCCAGGAGAACCAAATATATCTTACATATGCTCAAGGTATTACAGAGCTCCTGAACTCATATTTGGAGCAACCGAATACACAAGTGCGATCGATATGT
tcttgtt CT-rich tract
tttgttatatatgaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtttcatagctcttaatgggattttcaggggttgtttgttatatatgaaaacaatgagtagtgatgtcttgttggtttcagATTCCAGGAGAACCAAATATATCTTACATATGCTCAAGGTATTACAGAGCTCCTGAACTCATATTTGGAGCAACCGAATACACAAGTGCGATCGATATGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA