Sequence
atgc intronic sequence ATGC exonic sequencegtatatagcattctattccacattggaagtacaggtgttcatattgaaagagataataaaatagtatcactgtttgcagGCTGGTGAACTTATAGCAAGGCTTGATCTGGATGATCCTTCAGCTGTAAGAAAGGCAGAACCCTTCACTGGGAGCTTCCCAGTTCTGGGACCTCCTACTG
Basic information
species | Glycine max |
transcript | GLYMA06G11120.1 |
intron # | 18 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G11120.1 (Glycine max), 3'ss of exon 18
lower sequence: AC197672.3_FGT002 (Zea mays), 3'ss of exon 19
-----gtatatagcattctattcc--acattggaagtacaggtgt-tcatattgaaagagataataaaatagtatcactgt-ttgcagGCTGGTGAACTTATAGCAAGGCTTGATCTGGATGATCCTTCAGCTGTAAGAAAGGCAGAACCCTTCACTGGGAGCTTCCCAGTTCTGGGACCTCCTACTG
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gttatattcatacatgtccattccttgcattgttgctttcatcacatagtatttcatgtaaaatttaccaacttatattttgttttagGCTGGTGATCTTATAGCAAGGCTGGATCTTGATGACCCTTCTGCTGTGAAAAGAGCTGAACCATTTGATGGAATGTTTCCACTAATGGACCTCCCTGTTG
upper sequence: GLYMA06G11120.1 (Glycine max), 3'ss of exon 18
lower sequence: GRMZM5G858094_T01 (Zea mays), 3'ss of exon 19
---gtatata-gcat-tctattcc--acattggaagtacaggtgttcatattgaaagagataataaaatagtatcactgt-ttgcagGCTGGTGAACTTATAGCAAGGCTTGATCTGGATGATCCTTCAGCTGTAAGAAAGGCAGAACCCTTCACTGGGAGCTTCCCAGTTCTGGGACCTCCTACTG
||| ||| || ||||| ||||| | || | ||||| | | | | | | | | | | | || |||||||||| |||||||||||| | ||||| ||||| ||||| ||||| | || || || || || ||| | || ||| ||| | ||| ||
gttatattcgcacatgtccattccttgcattgtgctttcatcacataatatttcatgtaacatttatcaacttatattttgttttagGCTGGTGATCTTATAGCAAGGTTGGATCTTGATGACCCTTCTGCTGTGAAAAGAGCTGAGCCATTTGATGGAATATTTCCACAAATGGAGCTCCCTGTTG
upper sequence: GLYMA06G11120.1 (Glycine max), 3'ss of exon 18
lower sequence: AT1G36160.1 (Arabidopsis thaliana), 3'ss of exon 18
gtatatagcattctattccacattggaagtacaggtgttcatattgaaagagataataaaatagtatcactgtttgcagGCTGGTGAACTTATAGCAAGGCTTGATCTGGATGATCCTTCAGCTGTAAGAAAGGCAGAACCCTTCACTGGGAGCTTCCCAGTTCTGGGACCTCCTACTG
|| | ||| | | || | |||| || || ||| | | | || |||||||||||||||||||| | |||||||| ||||||||||| |||||||||||||| ||||||||| ||| || |||||| | || | ||| ||||
-----gttcacttcattgctaaacaaaaagcctacagttctgtttaaattgattaacccatccattatttttttcacagGCTGGTGAACTTATAGCCAATCTTGATCTTGATGATCCTTCTGCTGTAAGAAAGGCCGAACCCTTCCATGGAAGTTTCCCAAGATTAGGGCTTCCAACTG
upper sequence: GLYMA06G11120.1 (Glycine max), 3'ss of exon 18
lower sequence: AT1G36180.1 (Arabidopsis thaliana), 3'ss of exon 18
gtatatagc--attctattccacattggaagtacaggtgttcatattgaaagagataataaaatagtatcactgttt----gcagGCTGGTGAACTTATAGCAAGGCTTGATCTGGATGATCCTTCAGCTGTAAGAAAGGCAGAACCCTTCACTGGGAGCTTCCCAGTTCTGGGACCTCCTACTG
|| | | | |||| | | | | | | | | ||| | | | || || | | ||| |||||||||||||| ||||| | ||||||||| ||||||||||| |||||||||||||| |||||||| ||| || |||||| | || | ||| || |
gtgaagaaccaattcattgctaaagaaaatttgtttcttacagttttgtagaaattgattaacccatccgatattttcttgacagGCTGGTGAACTCATAGCCAAGCTTGATCTTGATGATCCTTCTGCTGTAAGAAAGGCCAAACCCTTCCGTGGAAGTTTCCCACGATTAGGGCTTCCAACGG
upper sequence: GLYMA06G11120.1 (Glycine max), 3'ss of exon 18
lower sequence: Vv18s0001g04980.t01 (Vitis vinifera), 3'ss of exon 19
gtatatagcattctattccacattggaagtacaggtgttcatattgaaagagataataaaatagtatcactgtttgcagGCTGGTGAACTTATAGCAAGGCTTGATCTGGATGATCCTTCAGCTGTAAGAAAGGCAGAACCCTTCACTGGGAGCTTCCCAGTTCTGGGACCTCCTACTG
|| || | ||||| ||||||||| || | | ||| | || || | | || | | || |||||||||| ||||||||||| |||||||| ||||||||||| |||||||| || ||||| || ||| ||||||||| ||| || | || ||||| ||||
----gtaaaata-tgttccatattggaagttttagtatcc-tatccttggtagagattaagaaatcacattttgtgtagGCTGGTGAGCTTATAGCAAGACTTGATCTAGATGATCCTTCTGCTGTAAGGAAAGCAGAGCCTTTCCATGGGAGCTTTCCAATTTTAGGGCCTCCCACTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggaagtacaggtgttcatattgaaagagataataaaatagtatcactgtttgcagGCTGGTGAACTTATAGCAAGGCTTGATCTGGATGATCCTTCAGCTGTAAGAAAGGCAGAACCCTTCACTGGGAGCTTCCCAGTTCTGGGACCTCCTACTG
atattgaaagagataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatagcattctattccacattggaagtacaggtgttcatattgaaagagataataaaatagtatcactgtttgcagGCTGGTGAACTTATAGCAAGGCTTGATCTGGATGATCCTTCAGCTGTAAGAAAGGCAGAACCCTTCACTGGGAGCTTCCCAGTTCTGGGACCTCCTACTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT