Sequence
atgc intronic sequence ATGC exonic sequencegtataatgatcgggttagggtggatggattgtaaggattttgactttattcatgagaggtttcttgttcaatgtagGATCCTGTAAAGTCTATCCACTTCAGTAATTCAAATCCTATGTGCCATGCATTTGATCAGGATTCTAAGGATGGGCATGATTTGATCATTGGCTTGAATA
Basic information
species | Glycine max |
transcript | GLYMA13G20240.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G20240.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G37160.1 (Arabidopsis thaliana), 3'ss of exon 2
----------------gtataatgatcgggttagggtggatggattgtaaggatt-ttgactttattcatgagaggtttcttgttcaatgtagGATCCTGTAAAGTCTATCCACTTCAGTAATTCAAATCCTATGTGCCATGCATTTGATCAGGATTCTAAGGATGGGCATGATTTGATCATTGGCTTGAATA
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gtaatcttacctctactcgttttgttttcttaagatttgatttgatctgctggttgtttgtcacatttatgagaaattatttg----atttagGATCCAGTAAAGTCTATACATATCAGCAATTCAAACCCTATGTGCCATGCATTTCATCCAGATGCTAAGGATGGACATGATCTACTTATTGGGCTGAACT
upper sequence: GLYMA13G20240.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G53390.1 (Arabidopsis thaliana), 3'ss of exon 2
-----------------gtataatgatcgggttagggtggatggattgtaaggattttgactttattcatgaga----ggttt------cttgttcaatgtagGATCCTGTAAAGTCTATCCACTTCAGTAATTCAAATCCTATGTGCCATGCATTTGATCAGGATTCTAAGGATGGGCATGATTTGATCATTGGCTTGAATA
| | | | | ||| || | ||| | |||| ||| || || ||||| ||| || ||||||||||| |||||||||||||| |||||||||||||| |||||||| ||||| ||||||| |||| |||||||||||||||| || | ||||| |||||
gtaatttcttcttttctttgttttccttttagtgatttggctgtaatgttctgttttttgttttgttttggaagtaatggtttaggaaacttctttgatgtagGATCCAGTAAAGTCTATCCATTTCAGTAATTCAAACCCTATGTGTCATGCTTTTGATCCGGATGCTAAGGATGGGCATGACTTACTTATTGGGCTGAATT
upper sequence: GLYMA13G20240.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv08s0040g01960.t01 (Vitis vinifera), 3'ss of exon 2
----------gtataatgatcg-ggttagggtggatggat--tgtaaggattttgactttattcatgagaggtttcttgttcaatgtagGATCCTGTAAAGTCTATCCACTTCAGTAATTCAAATCCTATGTGCCATGCATTTGATCAGGATTCTAAGGATGGGCATGATTTGATCATTGGCTTGAATA
|| | || | |||| | || | ||| | || || || | |||||||||| || || |||||||||||| |||||||||| || || |||||||| |||||| | || ||||||||||| | |||| |||||||||| ||||||||| | ||||| ||||||
gtaatttgatgttttctggctgcggttttaatcaataattcatgtcttgcgttggaattggattttgagaggtttgttttttaatgtagGATCCCATAAAGTCTATACATTTTAGTAATTCGAATCCTGTTTGTCATGCATTTGACCCGGATGCTAAGGATGGACATGATTTGCTTATTGGGTTGAATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggatggattgtaaggattttgactttattcatgagaggtttcttgttcaatgtagGATCCTGTAAAGTCTATCCACTTCAGTAATTCAAATCCTATGTGCCATGCATTTGATCAGGATTCTAAGGATGGGCATGATTTGATCATTGGCTTGAATA
ttttgac putative branch site (score: 3)
tttcttgttc putative PPT
attttgactttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtataatgatcgggttagggtggatggattgtaaggattttgactttattcatgagaggtttcttgttcaatgtagGATCCTGTAAAGTCTATCCACTTCAGTAATTCAAATCCTATGTGCCATGCATTTGATCAGGATTCTAAGGATGGGCATGATTTGATCATTGGCTTGAATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG