Sequence
atgc intronic sequence ATGC exonic sequencegtagttatatttttgttttccattgcaattgcatctctgggggtatcagagggagacgtagtttcataatgagccgttgtgtacttgtatctttgctggtcacagATTGATAGCAACACTGATGGGTTAGTGGACTTCACAGAGTTTGTAGCAGCAGCTCTACATGTTCATCAACTAGAAGAACATGATTCAGAGAAATGGCAGC
Basic information
species | Arabidopsis thaliana |
transcript | AT5G66210.2 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G66210.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GRMZM2G157068_T01 (Zea mays), 3'ss of exon 10
-------gtagttatatttttgtttt--ccattgcaattgcatctctgggggtatcagagggagacgtagtttcataatgagccgttg--tgtacttgtatctttgctggtcacagATTGATAGCAACACTGATGGGTTAGTGGACTTCACAGAGTTTGTAGCAGCAGCTCTACATGTTCATCAACTAGAAGAACATGATTCAGAGAAATGGCAGC-
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gtaagtttgagccttcttctggatccagccctttctttgttaccccccttgtttccaagaaaatagctggccttgttctgagggtataaccaaaactgcatcttattttgtggtagATTGACAGCAACACTGATGGGCTCGTGGACTTCAAGGAGTTTGTTGCGGCAACTCTCCATATCCACCAGATGGCGGAGCTCGACTCAGAAAGGTGG-GGCA
upper sequence: AT5G66210.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA01G37100.1 (Glycine max), 3'ss of exon 11
--------------------------------------------------------------------------------------gtagttatatt-tttgttttccattgcaattgcatctctg--ggggtatcagagggagacgtagtttcataatgagccgttgtgtacttgtatctttgctggtcacagATTGATAGCAACACTGATGGGTTAGTGGACTTCACAGAGTTTGTAGCAGCAGCTCTACATGTTCATCAACTAGAAGAACATGATTCAGAGAAATGGCAGC
| | ||||| ||| | || || ||| || | | | | | ||| | | | | | | ||| | || | || | ||||| || |||||||| |||||| ||||||| ||||| |||||||| ||||| || ||||||| |||||| | || ||||||||||| || || |||||||
gttagtatctacaatgatcctttataggcaccacatttttgtttgttactttaaaaaatttgaaacacatgaagtttccttagcgtatgatgatattattttctctcttttatcattttatttttattgagacaatagatgtttctcctaatcactctctattcaccata-gcttttgtcctgtgtgttggcagATAGACAGCAACACAGATGGGCTAGTGGATTTCACCGAGTTTGTGGCAGCTACTTTACATGTACATCAATTGGAGGAACATGATTCTGACAAGTGGCAGC
upper sequence: AT5G66210.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA11G08180.1 (Glycine max), 3'ss of exon 11
gtagttatatttttgttttccattgcaattgcatctctgggggtatcagagggagacgtagtttcataatgagccgttgtgta---cttgtatctttgctggtcacagATTGATAGCAACACTGATGGGTTAGTGGACTTCACAGAGTTTGTAGCAGCAGCTCTACATGTTCATCAACTAGAAGAACATGATTCAGAGAAATGGCAGC
|||||| | || || |||| || | | | | | | | | | | || | || | ||| | |||| || | ||||| || |||||||| |||||| ||||||| ||||| |||||||| ||||| | ||||||| |||||| | || ||||||||||| || || |||||||
------ttattttctctctcttttattattgtatttttatagagacaatat--atatttctcctaatggcactctattcaccatagcttttgtcttgtgtgttggcagATAGACAGCAACACAGATGGGCTAGTGGATTTCACCGAGTTTGTGGCAGCTACATTACATGTACATCAATTGGAGGAACATGATTCTGACAAGTGGCAGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gggagacgtagtttcataatgagccgttgtgtacttgtatctttgctggtcacagATTGATAGCAACACTGATGGGTTAGTGGACTTCACAGAGTTTGTAGCAGCAGCTCTACATGTTCATCAACTAGAAGAACATGATTCAGAGAAATGGCAGC
tctttgct CT-rich tract
tttcataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagttatatttttgttttccattgcaattgcatctctgggggtatcagagggagacgtagtttcataatgagccgttgtgtacttgtatctttgctggtcacagATTGATAGCAACACTGATGGGTTAGTGGACTTCACAGAGTTTGTAGCAGCAGCTCTACATGTTCATCAACTAGAAGAACATGATTCAGAGAAATGGCAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC