Sequence
atgc intronic sequence ATGC exonic sequencegtatgctctgcattatataatacttcatcatccacactgaaagtttatatgatagatactcatgattttctctttgtcttttggatgaaacagAATGTAATTCATGGTGACATCAAACCTGACAATTTACTGGTTACTAGTACCGGGAGAGTGAAAATAGGAGATTTCAGTGTCAGCCAAGTATTCAAA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G45240.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G45240.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os03g50330.1 (Oryza sativa), 3'ss of exon 7
gtatgctct-gcattatataatacttcatcatccacactgaa--agtttatatgatagata-ctcatgat-tttctctttgtcttttgg-atgaaac--agAATGTAATTCATGGTGACATCAAACCTGACAATTTACTGGTTACTAGTACCGGGAGAGTGAAAATAGGAGATTTCAGTGTCAGCCAAGTATTCAAA
|| |||||| | | || || | | || || ||| | |||| || | || ||||| || | || || | || || | || ||||| | ||||||||||| |||||||| |||||||| |||| || || || || || ||||| ||||| ||||||||||| || || | || |
gt-tgctctagtcacacatttatctacgttatgcagtctgcactgtgttatgtgcttcctaactcatcatgtcactgaatgcttcctgtcattatacgcagAATATTATTCATGGTGATATCAAACCAGACAATTTGTTGGTCACAAGCACTGGCAGTGTGAAGATAGGGGATTTCAGTGTTAGTCAGATTTTTGAG
upper sequence: AT3G45240.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G057084_T02 (Zea mays), 3'ss of exon 8
---------gtatgctctgcattatataatacttcatcat--ccacactgaaagtttatat-gatagatactcatgattttctctttgtcttttggatgaaacagAATGTAATTCATGGTGACATCAAACCTGACAATTTACTGGTTACTAGTACCGGGAGAGTGAAAATAGGAGATTTCAGTGTCAGCCAAGTATTCAAA
| ||| || ||| || | || | | || |||| | ||||| || | ||||||| | || | | ||| | ||||||||| ||||||||||| |||||||| |||||| | ||||||| ||| |||| | ||||| || || ||||||||||| ||||| || || |
ctgttttttgattgcctctttttctatgctatgcagttatgtctatgctctgtgtttgccttgataggaacac-tgatttttttcttcttct---gat-acacagAATGTTATTCATGGTGATATCAAACCAGACAATCTCTTGGTTACCAGTGCCGGCAATGTGAAGATTGGGGATTTCAGTGTTAGCCAGGTTTTTGAG
upper sequence: AT3G45240.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G133854_T01 (Zea mays), 3'ss of exon 6
-gtatgctctgcattatataatacttcatcatccacactgaaagtt-tata-tgatagatactcatgatt-------ttctctttgtcttttggatgaaacagAATGTAATTCATGGTGACATCAAACCTGACAATTTACTGGTTACTAGTACCGGGAGAGTGAAAATAGGAGATTTCAGTGTCAGCCAAGTATTCAAA
| | | | |||| ||| || | | | | | ||| || | | | ||||| | | ||| | ||||| | ||||||||| ||||||||||| ||||| || |||||| | ||||||| |||||||| | ||||| || || ||||||||||| ||||| || || |
tctctaccccattttatgacatattttttttgttatgcagtttgcagtatgctgtctgcttccattgattgggagagtaatattttttttttgtac---acagAATGTTATTCATGGTGATATCAAGCCAGACAATCTCTTGGTTACCAGTACCGGCAACGTGAAGATCGGGGATTTCAGTGTTAGCCAGGTTTTTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaagtttatatgatagatactcatgattttctctttgtcttttggatgaaacagAATGTAATTCATGGTGACATCAAACCTGACAATTTACTGGTTACTAGTACCGGGAGAGTGAAAATAGGAGATTTCAGTGTCAGCCAAGTATTCAAA
tttatatgatagata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgctctgcattatataatacttcatcatccacactgaaagtttatatgatagatactcatgattttctctttgtcttttggatgaaacagAATGTAATTCATGGTGACATCAAACCTGACAATTTACTGGTTACTAGTACCGGGAGAGTGAAAATAGGAGATTTCAGTGTCAGCCAAGTATTCAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT