Sequence
atgc intronic sequence ATGC exonic sequencegtattgttttttgtttttattctcttcttttgttcgaggggttttcatctgatgtagattgttgttgtcaaaactcaatttatttcttttttcgtattattctgtctagGGGACCGGCAACAGGTTTTCAAGGAAAAGTACTCCTTGCGTTTGAAGGCAATGGATCTTCAAAAATCGGGGTTAGATTTGATAGATCGATACCAGATGGC
Basic information
species | Arabidopsis thaliana |
transcript | AT1G02890.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G02890.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 10
gtattgttttttgtttttattctcttcttttgttcgaggggttttcatctgatgtagattgttgttgtcaaaactcaatttatttcttttttcgtattattctgtctagGGGACCGGCAACAGGTTTTCAAGGAAAAGTACTCCTTGCGTTTGAAGGCAATGGATCTTCAAAAATCGGGGTTAGATTTGATAGATCGATACCAGATGGC
| |||| | | | || | |||| | ||| | | | || || || | ||| | || |||| || ||| | ||| || |||||||| || | | ||| ||||| || ||||| ||||||| ||| | ||||||||||| |||||||| ||||||| ||| || |||||||||
------tattttatcctcctgctaattttttatatctaatcctttagtttatatttttttcttattctggaaaattaag--attttattcttctt-ctatattggtcagGGGACCTAGCTATGGCTCCCGAGGCAAAGTTCTGCTTGCTTTTGAAGATAATAGGTCTTCAAAAATTGGGGTTAGGTTTGATAAATCAATTCCAGATGGC
upper sequence: AT1G02890.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 6
gtattgttttttgtttttattctcttcttttgttcgaggggttttcatctgatgtagattg-ttgttgtcaaaactcaatttatttcttttttcgtattattctgtctagGGGACCGGCAACAGGTTTTCAAGGAAAAGTACTCCTTGCGTTTGAAGGCAATGGATCTTCAAAAATCGGGGTTAGATTTGATAGATCGATACCAGATGGC
|||| | | | || | ||||| | || | | || | || || || | ||| | || |||| | || | ||| || |||||||| || | | || ||||| || ||||| ||||||| ||| | ||||||||||| |||||||| ||||||| ||| || |||||||||
-------attttatcctcctgctaattttttgatatctaatcatttagtttatatttttttcttattctggaaaattaagatattattcttctt---ctatattgatcagGGGACCAAGCTATGGCTCCCGGGGCAAAGTTCTGCTTGCTTTTGAAGATAATAGGTCTTCAAAAATTGGGGTTAGGTTTGATAAATCAATTCCAGATGGC
upper sequence: AT1G02890.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA10G02410.1 (Glycine max), 3'ss of exon 7
gtattgttttttgtttttattctcttcttttgttcgaggggttttcatctgatgtagattgttgttgtcaaaactcaatttatttcttttttcgtattattctgtctagGGGACCGGCAACAGGTTTTCAAGGAAAAGTACTCCTTGCGTTTGAAGGCAATGGATCTTCAAAAATCGGGGTTAGATTTGATAGATCGATACCAGATGGC
| |||| ||| | | | || | || | || | || | | | | ||||| || | | || | |||| || || || |||| | | |||||||| || | | || ||||| ||||| || ||||||| || || ||||||||||| |||||||| ||||||| ||| || |||||||||
-ttctgttctttctgataacacttct-ttctatttcaaatccattagtttactttt--ttgtttttctgagaaatggattttattgttcttctatattgtgc-----agGGGACCAAGCTATGGCTCCCGGGGCAAAGTTCTCCTAGCTTTTGAAGATAACGGGTCTTCAAAAATTGGGGTTAGGTTTGATAAATCAATTCCAGATGGC
upper sequence: AT1G02890.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA02G17400.1 (Glycine max), 3'ss of exon 7
--gtattgttttttgtttttattctcttcttttgttcgaggggttttcatctgatgtagattgttgttgtcaaaactcaatttatttcttttttcgtattattctgtctagGGGACCGGCAACAGGTTTTCAAGGAAAAGTACTCCTTGCGTTTGAAGGCAATGGATCTTCAAAAATCGGGGTTAGATTTGATAGATCGATACCAGATGGC
| |||| ||| | | | ||| | | | ||| | | ||| | | || || || || | || | |||| ||||| || |||| | | |||||||| || | | || ||||| ||||| || ||||||| || || ||||||||||| |||||||| ||||||| ||| || ||||||||
ttcttctgttctttatgataactcttctttctatttcaaa-----tccat-tagtttaatttttttttctgggaaatggattttattcttcttctatattgtgc-----agGGGACCAAGTTATGGCTCCCGGGGCAAAGTTCTCCTAGCTTTTGAAGATAACGGGTCTTCAAAAATTGGGGTTAGGTTTGATAAATCAATTCCAGATGGA
upper sequence: AT1G02890.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 10
gtattgttttttgtttttattctcttcttttgttcgaggggttttcatctgatgtagattgttgttgtcaaaactcaatttatttcttttttcgtattattctgtctagGGGACCGGCAACAGGTTTTCAAGGAAAAGTACTCCTTGCGTTTGAAGGCAATGGATCTTCAAAAATCGGGGTTAGATTTGATAGATCGATACCAGATGGC
|| || | | | | | | | | | | | | | ||| ||||| ||| ||||| ||||| ||| | || || | |||||||| | | |||| || ||| |||||||| ||||| ||||||| |||||||| || ||||| ||||||||||||||||||||||| || || ||
-catcattgcatatcaaaaacatgatttatgagttaacaactatgccttcagtgttt-ttgtt-ctgttaaaaca------gtttctcattttatgttttttattgcagGGGACCAACTAATGGTTATCGAGGCAAAGTACTACTTGCTTTTGAAGAAAATGGATCCTCCAAAATTGGGGTTAGATTTGATAGATCGATTCCGGAAGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagattgttgttgtcaaaactcaatttatttcttttttcgtattattctgtctagGGGACCGGCAACAGGTTTTCAAGGAAAAGTACTCCTTGCGTTTGAAGGCAATGGATCTTCAAAAATCGGGGTTAGATTTGATAGATCGATACCAGATGGC
tttcttttttcgtatt CT-rich tract
tcaatttatttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattgttttttgtttttattctcttcttttgttcgaggggttttcatctgatgtagattgttgttgtcaaaactcaatttatttcttttttcgtattattctgtctagGGGACCGGCAACAGGTTTTCAAGGAAAAGTACTCCTTGCGTTTGAAGGCAATGGATCTTCAAAAATCGGGGTTAGATTTGATAGATCGATACCAGATGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG