Sequence
atgc intronic sequence ATGC exonic sequence...cttatccattgcgttgaaactgaagaaaaacttgttattgaggagtaatgttaactgttttcttctgactagttaactctttttaatttttctttcacagGCAACTCCAGATATGGCTGTTATTCTTCTCGAAATTGCCAGAATATTTGCCACCAAAGTTCCAGGGAAAATTGACGCTGATGTCTTACAGCTGCTATGGA
Basic information
species | Arabidopsis thaliana |
transcript | AT2G07360.2 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G07360.2 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: LOC_Os03g15900.2 (Oryza sativa), 3'ss of exon 12
cttatccat-tgcgttgaaactgaagaaaaacttgttattgaggagtaatgttaactgttttcttc-tgactagttaactcttt-ttaatttttctttcacagGCAACTCCAGATATGGCTGTTATTCTTCTCGAAATTGCCAGAATATTTGCCACCAAAGTTCCAGGGAAAATTGACGCTGATGTCTTACAGCTGCTATGGA
|| | ||| ||| | || | || ||| | | | | | | || | | | || | || | | || || || || | | |||||||||| |||||||| || | ||| || || ||||| ||||| ||||| ||||||||||| || || || || |||||||| |||| || || ||||
-ttgtgcatacattttgtagctattaatttgattattaataatcttt--tatcatttgctaaatacatggttgatttattattcgtttgttcttacatgatagGCAACTCCTGATATGGCCGTGACTCTGCTTGAGATTGCTAGAATTTTTGCTACCAAAGTTCCTGGCAAGATCGATGCTGATGTACTACAACTCCTGTGGA
upper sequence: AT2G07360.2 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GRMZM2G012319_T02 (Zea mays), 3'ss of exon 13
--cttatccattgcgttgaaactgaagaaaaacttgttattgaggagtaatgttaactgttttctt--ctgactagttaactctttttaatttttctttcacagGCAACTCCAGATATGGCTGTTATTCTTCTCGAAATTGCCAGAATATTTGCCACCAAAGTTCCAGGGAAAATTGACGCTGATGTCTTACAGCTGCTATGGA
|||| | | | | || ||| | | || ||| ||| |||| | ||||| ||| ||| ||| | || | | ||||||| || ||||||||||| | ||| || || ||||| ||||| |||||||| |||||||| || || ||||| |||||||| ||||| || ||||||
tttttatggttcatgcacttatccttctgatttttattagc-atgtgtccctttatctgatttcatgattgacttatta-ttctgtttg--tcttacatgatagGCAACCCCTGATATGGCTGTGACTCTGCTTGAGATTGCAAGAATTTTTGCCACTAAAGTTCCTGGAAAGATTGATGCTGATGTTCTACAGTTGTTATGGA
upper sequence: AT2G07360.2 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA08G03020.1 (Glycine max), 3'ss of exon 14
cttatccattgcgttgaaactgaagaaaaacttgttattgaggagtaatgt-taactgttttcttctgactagttaac--tctttttaatttttctttcacagGCAACTCCAGATATGGCTGTTATTCTTCTCGAAATTGCCAGAATATTTGCCACCAAAGTTCCAGGGAAAATTGACGCTGATGTCTTACAGCTGCTATGGA
|| | || | || | | | || | || || | | | ||| ||| | | | | | |||| | ||| |||||| |||| | |||| |||||||||||||||||| |||||| |||||||| ||||||||||| |||||||||||||| || |||| |||||||| ||||| ||||| ||||
-ttgtatatcttggtgcatgcaatgggtaaat-gtgcttttgtattcatgcataatggaaaacctgagtttgcttaatagttatttcaattttgctttga-agGCTTCTCCAGATATGGCTGTTACTCTTCTTGAAATTGCAAGAATATTTGCTACCAAAGTTCCAGGAAAGGTTGATGCTGATGTGTTACAACTGCTCTGGA
upper sequence: AT2G07360.2 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA05G36530.1 (Glycine max), 3'ss of exon 14
---cttatcc-attgcgttgaaactgaagaaaaacttgt-tattgaggagtaat-gttaactgttttcttctgactagttaactctttttaatttttctttcacagGCAACTCCAGATATGGCTGTTATTCTTCTCGAAATTGCCAGAATATTTGCCACCAAAGTTCCAGGGAAAATTGACGCTGATGTCTTACAGCTGCTATGGA
|||| | ||| | || | | | ||| | |||| | | |||| | ||| | | || | |||||| ||| |||||| |||| | |||| |||||||||||||||||| |||||| ||||||| ||||||||||| ||||||||||| || || |||| |||||||| || || ||||| ||||
ttgtatatcttagtgcatgcaatgggtaaatgtgcttttgtattcatgcataatagaaaacctaagtttgcttaatagtta-----tttcaattttgctttga-agGCTTCTCCAGATATGGCTGTTACTCTTCTTCAAATTGCAAGAATATTTGCTACCAAAGTTCCCGGAAAGGTTGATGCTGATGTGTTGCAACTGCTCTGGA
upper sequence: AT2G07360.2 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 15
cttatccattgcgttgaaactgaagaaaaacttgttattgaggagtaatgttaactgttttcttc-tgactagttaactctttttaatttttct---ttcacagGCAACTCCAGATATGGCTGTTATTCTTCTCGAAATTGCCAGAATATTTGCCACCAAAGTTCCAGGGAAAATTGACGCTGATGTCTTACAGCTGCTATGGA
| | | | | || || || | | | | ||| | ||| | | || || | | | ||| || | || |||||||||||||||||||||| | ||| || |||||||| ||||| ||||| || |||||||| ||||| ||||| |||||||| ||||| || |||||||
----taccatataaaatggtttttgcttccttttgtactgtgtatatacctggtttgtgtacttaatcaatattttattttctttttccttgttggcttattagGCAACTCCAGATATGGCTGTGACTCTCCTTGAAATTGCAAGAATTTTTGCTACTAAAGTTCCTGGGAAGATTGATGCTGATGTATTACAACTACTATGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatgttaactgttttcttctgactagttaactctttttaatttttctttcacagGCAACTCCAGATATGGCTGTTATTCTTCTCGAAATTGCCAGAATATTTGCCACCAAAGTTCCAGGGAAAATTGACGCTGATGTCTTACAGCTGCTATGGA
ctctttttaatttttc CT-rich tract
ttaactctttttaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttatccattgcgttgaaactgaagaaaaacttgttattgaggagtaatgttaactgttttcttctgactagttaactctttttaatttttctttcacagGCAACTCCAGATATGGCTGTTATTCTTCTCGAAATTGCCAGAATATTTGCCACCAAAGTTCCAGGGAAAATTGACGCTGATGTCTTACAGCTGCTATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT