Sequence
atgc intronic sequence ATGC exonic sequence...atgtgatttaaattcccaagattgagcttttattgttgggcaattgatgtgcctgtagatttaatacattctaagtctcgtactccttaatttcatgcagGATGCAAAGATTTGTTTTTCTGATGATACATTACCAGATGGGTATAGTGTAAATAAAGGAGACATGGTATCTTACCAACCTTATGCAATGGGTCGGATGA
Basic information
species | Glycine max |
transcript | GLYMA07G09150.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G09150.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv15s0048g01690.t01 (Vitis vinifera), 3'ss of exon 4
atgtgatttaaattcccaagattgagcttttat-tgttgggcaattgatgtgcctgtagatttaatacattct-aagtctcgtactccttaatttca----tgcagGATGCAAAGATTTGTTTTTCTGATGATACATTACCAGATGGGTATAGTGTAAATAAAGGAGACATGGTATCTTACCAACCTTATGCAATGGGTCGGATGA
| | || | || ||| | | || | || | | | | || |||| || |||| | | ||| | ||||||||||||||||||| ||||| ||||| || | |||||||||| ||||| | |||||||| ||||| ||||||||||| ||||||||||| ||||||
------tctccttttttgacatcttccttgcacattttcatcttctgcattatattttgtgccaaacagttctgaaatctcaaattttctaactctgggtttgcagGATGCAAAGATTTGCTTTTCAGATGACACGCTGCCAGATGGGTTCAGTGTGAGGAAAGGAGATATGGTGTCTTACCAACCATATGCAATGGGCAGGATGA
upper sequence: GLYMA07G09150.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv15s0048g01670.t01 (Vitis vinifera), 3'ss of exon 4
--atgtgatttaaattcccaagattgagcttttattgt-tgggcaat-tgatgtgcctgtagatttaatacattctaagtctcgtactccttaatttcatgcagGATGCAAAGATTTGTTTTTCTGATGATACATTACCAGATGGGTATAGTGTAAATAAAGGAGACATGGTATCTTACCAACCTTATGCAATGGGTCGGATGA
| ||| | || | | ||| || | || || | |||||| | | || | || || | | | || ||| |||||||||||||||||| ||||| ||||| || | |||||||||| ||||| | |||||||| || || ||||||||||| ||||||||||| ||||||
tctccttttttgacatcttcctagcaaattttcatcttctgcattatattttgtgcc-aaacagttctgaaatctcaaattttctgactctgggttt---gcagGATGCAAAGATTTGCTTTTCAGATGACACGCTGCCAGATGGGTTCAGTGTGAGGAAAGGAGATATAGTGTCTTACCAACCATATGCAATGGGCAGGATGA
upper sequence: GLYMA07G09150.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv15s0048g01680.t01 (Vitis vinifera), 3'ss of exon 4
--atgtgatttaaattcccaagattgagcttttattgt-tgggcaat-tgatgtgcctgtagatttaatacattctaagtctcgtactccttaatttcatgcagGATGCAAAGATTTGTTTTTCTGATGATACATTACCAGATGGGTATAGTGTAAATAAAGGAGACATGGTATCTTACCAACCTTATGCAATGGGTCGGATGA
| ||| | || | | ||| || | || || | |||||| || | || |||| || |||| | || ||||||||||||||||||| ||||| ||||| || | |||||||||| ||||| | |||||||| ||||| ||||||||||| ||||||||||| ||||||
tctccttttttgacatcttcctagcaaattttcatcttctgcattatattttgtgccaaacagttctgaaatctcaaagtttctaactc--tgggtt--tgcagGATGCAAAGATTTGCTTTTCAGATGACACGCTGCCAGATGGGTTCAGTGTGAGGAAAGGAGATATGGTGTCTTACCAACCATATGCAATGGGCAGGATGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatgtgcctgtagatttaatacattctaagtctcgtactccttaatttcatgcagGATGCAAAGATTTGTTTTTCTGATGATACATTACCAGATGGGTATAGTGTAAATAAAGGAGACATGGTATCTTACCAACCTTATGCAATGGGTCGGATGA
ccttaat putative branch site (score: 4)
atttaatacattctaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgtgatttaaattcccaagattgagcttttattgttgggcaattgatgtgcctgtagatttaatacattctaagtctcgtactccttaatttcatgcagGATGCAAAGATTTGTTTTTCTGATGATACATTACCAGATGGGTATAGTGTAAATAAAGGAGACATGGTATCTTACCAACCTTATGCAATGGGTCGGATGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - ttcccaa
- - - - - - - - - - - - - - - - -tgttggg
- - - - - - - - - - - - - - - - - - - - - - - - gtgcctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tacattc