Sequence
atgc intronic sequence ATGC exonic sequencegttagtaaaatatcttctgctttgggttagtagattggtgttgtaaagagttgtttaggatatgctggagattagattgtaacatggcattttgttgatgcagGCTGAAGTTGACTTTCTTGGACAGCTTCACCATCCTAACCTTGTGAAACTTATTGGTTATTGCATTGAAGATGATCAGCGGCTTCTTGTTTACGAGTTTA
Basic information
species | Glycine max |
transcript | GLYMA13G22790.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G22790.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv11s0016g05720.t01 (Vitis vinifera), 3'ss of exon 2
gttagtaaaatatcttctgctttgggttagtagattggtgttgtaaagagttgtttaggatatgctggagattagattgtaacat--ggcattttgttga-tgcagGCTGAAGTTGACTTTCTTGGACAGCTTCACCATCCTAACCTTGTGAAACTTATTGGTTATTGCATTGAAGATGATCAGCGGCTTCTTGTTTACGAGTTTA
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gttagtagattattt---actttgggttagtagattgac-ttg-aaaatgttagtaagaggctac-aaatatgacatgttaatgataggcattttcccaaacgcagGCTGAGGTAGGCTTCCTTGGACAGCTTCACCACCCTAATCTTGTTAAACTTATTGGGTACTGCATTGAAGATGATCAGCGACTGCTTGTTTATGAATTTA
upper sequence: GLYMA13G22790.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S207_2V6.1 (Physcomitrella patens), 3'ss of exon 2
-----gttagtaaaatatcttctgctttgggttagtagattggtgttgtaaagagttgtttaggatatgctggagattagattgtaacatggcattttgttgatgcagGCTGAAGTTGACTTTCTTGGACAGCTTCACCATCCTAACCTTGTGAAACTTATTGGTTATTGCATTGAAGATGATCAGCGGCTTCTTGTTTACGAGTTTA
| ||| ||||| | | || || || ||| | | | || || | | | || ||| || | | | | || | | ||||||||||||||| | |||||||| |||||||||||||| || || ||||| || ||||| |||||| || |||||||| || || || |||||||| || |
aagtagaaggtagggaatctttaaatat---ttcctactttagtgat-tcagctcttagttcaaacagaccggcacttacat----agacgtcgttatcgtaatgcagGCTGAAGTTAATTTTCTTGGTCAGCTTCACCATCCGAATCTCGTGAAGCTCATTGGATATTGCTCCGAGGATGATCAACGCCTGCTGGTTTACGAATTCA
upper sequence: GLYMA13G22790.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S31_254V6.1 (Physcomitrella patens), 3'ss of exon 2
gttagtaaaatatcttctgctttgggttagtagattggtgttgtaaagagtt-gtttaggatatgctggagattagattgtaac--atggcattttgttgatgcagGCTGAAGTTGACTTTCTTGGACAGCTTCACCATCCTAACCTTGTGAAACTTATTGGTTATTGCATTGAAGATGATCAGCGGCTTCTTGTTTACGAGTTTA
| | || | |||| | ||| ||| | | | | || | | | ||| || || | | | || | ||||| ||||| ||||||| || |||||||||||||| |||||||||||||| ||||| |||||| || |||||||| || || || |||||||| || |
------gaggtgagagaaactctaaaaaagtatctataatttgagtagattcagctctgaatgcacactgattgacattcacactggtgccgtgatcatgtttcagGCCGAAGTGAACTTTCTCGGTCAGCTTCACCATCCGAACCTTGTGAAACTCATTGGATATTGCTCAGAGGATGATCAACGTCTCCTGGTTTACGAATTCA
upper sequence: GLYMA13G22790.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ10730 (Selaginella moellendorffii), 3'ss of exon 1
gttagtaaaatatcttctgctttgggttagtagattggtgttgtaaagagttgtttaggatatgctggagattagattgtaacatggcattttgttgatgcagGCTGAAGTTGACTTTCTTGGACAGCTTCACCATCCTAACCTTGTGAAACTTATTGGTTATTGCATTGAAGATGATCAGCGGCTTCTTGTTTACGAGTTTA
|||| | ||| | || | | || | || | || | ||| ||||| || || | |||||||| ||||| || || || || || || | ||||| || ||| || |||||||||||||| |||||||||||||| |
------------------------------------------gtaagaacttggatgatatttaactccaacagga--gaaaaaaaatgttcttttg---cagGCAGAGGTGAATTTTCTTGGGCAGCTCCATCACCCGAATCTCGTCCGGTTGATTGGCTACTGCGCCGAGGATGATCAGCGGCTCCTTGTTTACGAGTTCA
upper sequence: GLYMA13G22790.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ35779 (Selaginella moellendorffii), 3'ss of exon 1
gttagtaaaatatcttctgctttgggttagtagattggtgttgtaaagagttgtttaggatatgctggagattagattgtaacatggcattttgttgatgcagGCTGAAGTTGACTTTCTTGGACAGCTTCACCATCCTAACCTTGTGAAACTTATTGGTTATTGCATTGAAGATGATCAGCGGCTTCTTGTTTACGAGTTTA
|||| | ||| | || | | || || | || || ||||||| || || | |||||||| ||||| || || || || || || | ||||| || ||| || |||||||||||||| |||||||||||||| |
------------------------------------------gtaagaacttggatgatatttaactccaacaggaaaaaaaaacaaatgttcttt--tgcagGCAGAGGTGAATTTTCTTGGGCAGCTCCATCACCCGAATCTCGTCCGGTTGATTGGCTACTGCGCCGAGGATGATCAGCGGCTCCTTGTTTACGAGTTCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttgtttaggatatgctggagattagattgtaacatggcattttgttgatgcagGCTGAAGTTGACTTTCTTGGACAGCTTCACCATCCTAACCTTGTGAAACTTATTGGTTATTGCATTGAAGATGATCAGCGGCTTCTTGTTTACGAGTTTA
ttttgtt CT-rich tract
attagatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtaaaatatcttctgctttgggttagtagattggtgttgtaaagagttgtttaggatatgctggagattagattgtaacatggcattttgttgatgcagGCTGAAGTTGACTTTCTTGGACAGCTTCACCATCCTAACCTTGTGAAACTTATTGGTTATTGCATTGAAGATGATCAGCGGCTTCTTGTTTACGAGTTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG