Sequence
atgc intronic sequence ATGC exonic sequencegtaattcttttgtacttcaatgatctaattaagtttcagaccaagatcgtttctttatctatctactgagagactctgaaaatatcaatattctaggcatttatcgcatatgtcctttttagGGATAATCACACAAAAATACTTGAATATCTTCGTGATATCTGGACTAAAGATCGGAGAGCTGAATGGTCAATATGGATGGTGTACTCTAAGGTTGAAATG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G58350.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G58350.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA17G26570.1 (Glycine max), 3'ss of exon 8
gtaattcttttgtacttcaatgatctaattaagtttcagaccaagatcgtttctttatctatctactgagagactctgaaaatatca-atattctaggcatttatcgcatatgtcctttttagGGATAATCACACAAAAATACTTGAATATCTTCGTGATATCTGGACTAAAGATCGGAGAGCTGAATGGTCAATATGGATGGTGTACTCTAAGGTTGAAATG
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--------tgtctgacatgacaaacaagagaggtgtccg--------tgtttcatagt-tatcca-tgcatgagtat----atatcatgaaatttaatcagctacaatat-tcttgtttttagGGATAACAAAACAAAGATTCTAGAATTTTTGCATGATGCTTGGGCTAAGGATCGAAAAGCTGAATGGTCAATATGGATGGTGTACTCTAAGGTCGAGATG
upper sequence: AT1G58350.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA08G08190.1 (Glycine max), 3'ss of exon 9
gtaattcttttgtacttcaatgatctaattaagtttcagaccaagatcgtttctttatctatctactgagagactctgaaaatatcaatattctaggcatttatcgcatatgtcctttttagGGATAATCACACAAAAATACTTGAATATCTTCGTGATATCTGGACTAAAGATCGGAGAGCTGAATGGTCAATATGGATGGTGTACTCTAAGGTTGAAATG
|| | || ||| | | | | || || || || || |||| || | | | || || | ||| | || | | ||||| | | | ||||| || | ||||||||||| |||| ||| ||| | |||| | ||| ||||| |||||||||||||||||||||||||||| ||||||| ||||
--aactgttatgttgtaggaaaagatgcacaa-ttcaagcataacat------tttagctgtacattaag-----tcgatatcatctctttttcaacc--ttatca------ttttactcagGGAAAACAAAACAAAAATACTGGAATTTCTACGTAAATCCTGGGAGATTGATAGGAGAACTGAATGGTCAATATGGATGGTGTACTCAAAGGTTGCAATG
upper sequence: AT1G58350.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA08G19570.1 (Glycine max), 3'ss of exon 8
gtaattcttttgtacttcaatgatctaattaagtttcagaccaagatcgtttctttatctatctactgagagactctgaaaatatcaatattctaggcatttatcgcatatgtcctttttagGGATAATCACACAAAAATACTTGAATATCTTCGTGATATCTGGACTAAAGATCGGAGAGCTGAATGGTCAATATGGATGGTGTACTCTAAGGTTGAAATG
|| || | |||| || ||| ||| | | || | | | || | ||| ||||| | || | | | ||||| ||| | ||||| ||||| |||| ||| ||| | ||| |||| ||||| ||| |||| ||||||||||||||||||||||| |||||||| |||
---------------------gaaaaaagatacactcagttaaatatcttttaatattaagccttccttcaagtcaatgacatggtttttctcttcctttttatt-ctcatcgcttcatcagGGAAAATAAAACAAAGATACTGGAATTTCTCCGTAACTCATGGGCTAATGATCGAAGAACTGAGTGGTCAATATGGATGGTGTACTCCAAGGTTGATATG
upper sequence: AT1G58350.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA15G05480.1 (Glycine max), 3'ss of exon 10
gtaattcttttgtacttcaatgatctaattaagtttcagaccaagatcgtttctttatctatctactgagagactctgaaaatatcaatattctaggcatttatcgcatatgtcctttttagGGATAATCACACAAAAATACTTGAATATCTTCGTGATATCTGGACTAAAGATCGGAGAGCTGAATGGTCAATATGGATGGTGTACTCTAAGGTTGAAATG
| || | | ||| || ||| | | | || || |||| | | ||| || | ||| ||||| | || | | | ||||| ||| | ||||| ||||| |||| ||| ||| | ||| | || ||||| ||| |||| || |||||||||||||||||||| |||||||| |||
------------agatgcactcagttaaatatcttttgagc--ataatattaagcattccttctagtcaacgac-------atggtttttctcttcctttttatt-ctcatcgcttcatcagGGAAAATAAAACAAACATACTGGAATTTCTCCGTAACTCATGGGCAAACGATCGAAGAACTGAGTGCTCAATATGGATGGTGTACTCCAAGGTTGATATG
upper sequence: AT1G58350.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv12s0055g00430.t01 (Vitis vinifera), 3'ss of exon 7
gtaattcttttgtacttcaatgatctaattaagtttcagaccaagatcgtttctttatctatctactgagagactctgaaaatatcaatattctaggcatttatcgcatatgtcctttttagGGATAATCACACAAAAATACTTGAATATCTTCGTGATATCTGGACTAAAGATCGGAGAGCTGAATGGTCAATATGGATGGTGTACTCTAAGGTTGAAATG
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---------------------aaaagggagaaatagttgagcatgtggattttgcactacatgatttgtgcttatttttctgtgccattaattcaaatgctgatgttatac-tttgttccagGGCTAACAAAAAAAAGATACTGGAATTTCTGATTGATGCATGGGCGAATGATCGGAGAGCTGAATGGTCAATATGGATGGTATACTCTAAGGTCGAGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagagactctgaaaatatcaatattctaggcatttatcgcatatgtcctttttagGGATAATCACACAAAAATACTTGAATATCTTCGTGATATCTGGACTAAAGATCGGAGAGCTGAATGGTCAATATGGATGGTGTACTCTAAGGTTGAAATG
tgtccttttt CT-rich tract
aaaatatcaatattct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattcttttgtacttcaatgatctaattaagtttcagaccaagatcgtttctttatctatctactgagagactctgaaaatatcaatattctaggcatttatcgcatatgtcctttttagGGATAATCACACAAAAATACTTGAATATCTTCGTGATATCTGGACTAAAGATCGGAGAGCTGAATGGTCAATATGGATGGTGTACTCTAAGGTTGAAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA