Sequence
atgc intronic sequence ATGC exonic sequence...gttatttatgttgagatatgtgattaatgattttgtttcataaattatcttatagttttaggctaagtatctacttttccacatcttgtgtatgtctcagAGAATATTTTGAAGATGTAGATCGAACTTGGGAGACCTTTGAGAAAACACTATGGGGCCACATTTCCAATTTTTATAAGCTCTCCAAAGAAAG
Basic information
species | Glycine max |
transcript | GLYMA03G03120.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G03120.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G070045_T01 (Zea mays), 3'ss of exon 1
gttatttatgttgagatatgtgattaatgattttgtttcataaattatcttatagttttaggctaagtatctacttttccacatcttgtgtatgtctcagAGAATATTTTGAAGATGTAGATCGAACTTGGGAGACCTTTGAGAAAACACTATGGGGCCACATTTCCAATTTTTATAAGCTCTCCAAAGAAAG
| |||| |||| | | ||||||||| ||||| ||||| || ||||| ||||| ||||||||||||||| ||||| |||| || || || |||| || || || ||||| ||
---------------------------------------------------------------------ttcacttgatggattctta---actccacagAGAATACTTTGAGGATGTTGACCGAACATGGGAAACCTTTGAGAAAACATTATGGAGCCATATCTCTAACTTTTTCAAACTTTCAAAAGAGAG
upper sequence: GLYMA03G03120.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G71820.1 (Arabidopsis thaliana), 3'ss of exon 7
gttatttatgttgagatatgtgattaat-gattttgtttcataaattatcttatagttttaggctaa-----gtatctacttttccaca--tcttgtgtatgtctcagAGAATATTTTGAAGATGTAGATCGAACTTGGGAGACCTTTGAGAAAACACTATGGGGCCACATTTCCAATTTTTATAAGCTCTCCAAAGAAAG
|| | || |||| | | ||| | || | | | |||| | ||||| | || | |||| | | | | || || | |||| || |||||||||||||| ||| |||| ||||| || || ||||| ||||||||||| || ||||||| | ||| || || || ||||||||
-------ttggtagtgcatatgatgatttgatcccgcctc-tggactgtcttttctttttacatgagcatgcataccaacttctaaagagttgttttgatgggttcagGGAGTATTTTGAAGATGTTGATAGAACATGGGAAACATTCGAGAAGACACTATGGGGTCATGTTTCCAACTATTACAAACTTTCTAAAGAAAG
upper sequence: GLYMA03G03120.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 6
gttatttatgttgagatatg-tgattaatgattttgtttcataaattatcttatagttttaggctaagtatctacttttccacatc------ttgtgtatgtctcagAGAATATTTTGAAGATGTAGATCGAACTTGGGAGACCTTTGAGAAAACACTATGGGGCCACATTTCCAATTTTTATAAGCTCTCCAAAGAAAG
| ||| ||| | |||| ||| || || | || | ||| | | ||| || || || | || ||| ||| || || |||||||| ||||||||||||||||| |||||||| |||||||| ||| |||||||||| ||||| || || ||||| || || ||||||||
----aacaggtttggatgtaatgatgaata--catgacacaaaggatagttgatatctgtgcgctttgttcttatgatttgagattgaagtgttgaatat-tcatagGGAATATTTCGAAGATGTAGATCGAACCTGGGAGACATTTGAGAAGACATTATGGGGCCATATTTCGAACTTCTATAAACTTTCTAAAGAAAG
upper sequence: GLYMA03G03120.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv03s0097g00670.t01 (Vitis vinifera), 3'ss of exon 6
gttatttatgttgagatatg-tgattaatgattttgtttcataaattatcttatagttttaggctaagtatctacttttccacatc----ttgtgtatgt-ctcagAGAATATTTTGAAGATGTAGATCGAACTTGGGAGACCTTTGAGAAAACACTATGGGGCCACATTTCCAATTTTTATAAGCTCTCCAAAGAAAG
| ||| ||| | |||| ||| || | || | || | | ||| || || || | || | || || | | ||| |||||||||||||||||||||||||| |||||||| |||||||| || ||||||| || ||||| || || ||||| || || ||||||||
----aacaggtttggatgtaatgatgaata--cacaacacaaaggatagttgatgtctgtgtgctttgttcttatgatttgagattgaaatgctgaatatacacagGGAATATTTTGAAGATGTAGATCGAACCTGGGAGACATTTGAGAAGACGTTATGGGGTCATATTTCAAACTTCTATAAACTTTCTAAAGAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatcttatagttttaggctaagtatctacttttccacatcttgtgtatgtctcagAGAATATTTTGAAGATGTAGATCGAACTTGGGAGACCTTTGAGAAAACACTATGGGGCCACATTTCCAATTTTTATAAGCTCTCCAAAGAAAG
tatagtttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttatttatgttgagatatgtgattaatgattttgtttcataaattatcttatagttttaggctaagtatctacttttccacatcttgtgtatgtctcagAGAATATTTTGAAGATGTAGATCGAACTTGGGAGACCTTTGAGAAAACACTATGGGGCCACATTTCCAATTTTTATAAGCTCTCCAAAGAAAG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA