Sequence
atgc intronic sequence ATGC exonic sequence...tttagtgtattcttgtctgtgtagttaggtaattcttgatattgtgatgtactttggtggttatttcattctataagccacactagtttctcttttgtagGGATTCAGATTGATGATGAGGAACTTGCCCGATTTGTTGAGCGTGTAGACAAGGATCATAATGGGGTTATAACATTTGGAGAATGGAGGGATTTTCTGCT
Basic information
species | Glycine max |
transcript | GLYMA02G07400.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G07400.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os02g10740.1 (Oryza sativa), 3'ss of exon 1
tttagtgtattcttgtctgtgtagttaggtaattcttgatattgtgatgtactttggtggttatttca---ttctataagccacactagtttctcttttgtagGGATTCAGATTGATGATGAGGAACTTGCCCGATTTGTTGAGCGTGTAGACAAGGATCATAATGGGGTTATAACATTTGGAGAATGGAGGGATTTTCTGCT
|| | || | | || | || || | | | | | || || ||| | || ||| | | ||||| |||| ||| || | |||||||| ||||| ||||| |||||||||||| ||| || |||||| ||||||| |||| || |||| |||||||||||| ||||| |
---ggtttttttccctattattaaatcactatgtcctaggaaagcacctgataattgtagtccttttgatgtcttacaagtaatatcagtttgctgtttgcagGCATAGAAATTGATGACGAGGAGCTTGCAAGATTTGTTGAGCATGTGGATAAGGATAATAATGGAATTATTACTTTTGAAGAATGGAGGGACTTTCTTTT
upper sequence: GLYMA02G07400.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os06g40200.1 (Oryza sativa), 3'ss of exon 1
tttagtgtattct-tgtctgtgtagttaggtaattcttgatattgtgatgtactttggtggttatttcattctataagccacactagtttctcttttgtagGGATTCAGATTGATGATGAGGAACTTGCCCGATTTGTTGAGCGTGTAGACAAGGATCATAATGGGGTTATAACATTTGGAGAATGGAGGGATTTTCTGCT
| || || | | | ||||| ||| ||| | || ||| | ||| | || | || || |||| | || || | |||| ||| || |||||||||||||||| ||||| || ||||| |||| ||| |||||||| | ||||| |||| || |||| ||| |||||||| ||||| |
cctgaagtcttaaatatattcatagttgggttatt-tagagattttattgtttgcacatccataatatatcttacaagcaatgtcagcttgttgtttgcagGTATAGAGATTGATGATGAGGAGCTTGCACGGTTTGTCGAGCATGTGGACAAGGACAACAATGGAATTATTACTTTTGAAGAGTGGAGGGACTTTCTTTT
upper sequence: GLYMA02G07400.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv14s0068g00890.t01 (Vitis vinifera), 3'ss of exon 1
tttagtgtattcttgtctgtgtagttaggtaattcttgatattgtgatgtactttgg-tggttattt-cattctataagccacactagtttctcttttgtagGGATTCAGATTGATGATGAGGAACTTGCCCGATTTGTTGAGCGTGTAGACAAGGATCATAATGGGGTTATAACATTTGGAGAATGGAGGGATTTTCTGCT
| | ||| | || | | | | | || | || | ||| | |||| |||| ||| ||||||||| || ||| ||||||||||||||||| | |||||||||||||| ||||| ||||||||||| ||||| ||||||||| |||||||||| |||||||||| ||||||||| |||||||| |
--ttgcttatatatacctttaaacggaattcttctcagagaatggttccaattttagctggtcattttcatcctataagccgcagcagtctctcttttgtagGGATTAAAATTGATGATGAGGAGCTTGCTCGATTTGTTGAACGTGTGGACAAGGATAATAATGGGGTCATAACATTTGAAGAATGGAGAGATTTTCTTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatgtactttggtggttatttcattctataagccacactagtttctcttttgtagGGATTCAGATTGATGATGAGGAACTTGCCCGATTTGTTGAGCGTGTAGACAAGGATCATAATGGGGTTATAACATTTGGAGAATGGAGGGATTTTCTGCT
ctagtttctctttt CT-rich tract
ttatttcattctataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttagtgtattcttgtctgtgtagttaggtaattcttgatattgtgatgtactttggtggttatttcattctataagccacactagtttctcttttgtagGGATTCAGATTGATGATGAGGAACTTGCCCGATTTGTTGAGCGTGTAGACAAGGATCATAATGGGGTTATAACATTTGGAGAATGGAGGGATTTTCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - -tgtattc
- - - - - - - gtctgtg
- - - - - - - - - - - - - - - - - - - - - - tgatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - tggtggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccacact