Sequence
atgc intronic sequence ATGC exonic sequence...tattataataatgtctgtttttcccattttttttcaaagtgggtttcaactttgtcgtggtatcctcattgctaagccacttttgttttgttggttgcagATTCAGAGGCTCAGTGGAGTAGATTCCGATTTTGCTCCATTTGTGCAACACGCAGGGGTTCCATCCATTGACATGTATTATGGAAGAG
Basic information
species | Glycine max |
transcript | GLYMA19G39080.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G39080.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G54720.1 (Arabidopsis thaliana), 3'ss of exon 4
tattataataatgtctgtttttcccattttttttcaaagtgggtttcaactttgtcgtggtatcctcattgctaagccacttttgttttgttggttgcagATTCAGAGGCTCAGTGGAGTAGATTCCGATTTTGCTCCATTTGTGCAACACGCAGGGGTTCCATCCATTGACATGTATTATGGAAGAG
| | | || | | | || ||||| | ||| | | ||| | | | ||| | |||||||||||||||| ||| |||||||||| |||||| | ||| | || || || ||| | || || || |||||||| |||||| ||
---------------------gtgagtagactattcaaaagagctcatacattgtctttgtaatgt-aaaactatgtaatgt---tttaatgaactgcagATTCAGAGGCTAAGTAGAGTAGATTCTGATTTTTCCGGTTTTCTTCATCATGCCGGGATACCGTCTATAGACATGTACTATGGAGCAG
upper sequence: GLYMA19G39080.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv00s0352g00020.t01 (Vitis vinifera), 3'ss of exon 4
-tattataa-taatg--tctgtttttcccattttttttcaaagtgggtttcaactttgtcgtggtatcctcattgctaagccacttttgttttgttgg--ttgcagATTCAGAGGCTCAGTGGAGTAGATTCCGATTTTGCTCCATTTGTGCAACACGCAGGGGTTCCATCCATTGACATGTATTATGGAAGAG
|||||| | ||| | || | | || ||| || || | || | | | || | | ||| | | |||| ||| || ||||||||||| ||||| |||||||| |||| |||||||||||| || ||||||| ||||||||||| || |||| | || ||||||||||
gctttataaattatggctttggatatgtcaaaatttatctttgttgtttctatatggattgta-tgaagtaattattggga-----ttgtcttggcgggattgcagATTCAAAGGCTAAGTGGAGTGGATTATGATTTTGCTCCACTTTTGCAACATGCAGGGGTTCCTTCTGTTGATTTATACTATGGAAGAG
upper sequence: GLYMA19G39080.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv00s0285g00060.t01 (Vitis vinifera), 3'ss of exon 4
-tattataa-taatg--tctgtttttcccattttttttcaaagtgggtttcaactttgtcgtggtatcctcattgctaagccacttttgttttgttggttgcagATTCAGAGGCTCAGTGGAGTAGATTCCGATTTTGCTCCATTTGTGCAACACGCAGGGGTTCCATCCATTGACATGTATTATGGAAGAG
|||||| | ||| | || | | || ||| || || || | | | || | | ||| | | | ||| | | ||||||||||||||||| |||||||| ||||| |||||||||||| || ||||||| ||||||||||| || |||| | || ||||||||||
gctttataaattatggctttggatatgtcaaaatttatctttgttttttctatatggattgta-tgaagtaattattgggattgtcttggct---ggattgcagATTCAGAGGCTAAGTGGAGTGGATTCTGATTTTGCTCCACTTTTGCAACATGCAGGGGTTCCTTCTGTTGATTTATACTATGGAAGAG
upper sequence: GLYMA19G39080.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv00s0319g00060.t01 (Vitis vinifera), 3'ss of exon 3
tattataataatgtctgtttttcccatttttt--ttcaaagtgg--gtttcaactttgtcgtggtatcctcattgctaagccacttttgttttgttggttgcagATTCAGAGGCTCAGTGGAGTAGATTCCGATTTTGCTCCATTTGTGCAACACGCAGGGGTTCCATCCATTGACATGTATTATGGAAGAG
| || ||| | | ||| || | || | | | | ||||| | | | | | ||| | | | ||| | | ||||||||||||||||| |||||||| ||||| |||||| ||||| || ||||||| ||||||||||| || |||| | || ||||||||||
-gctttataaattttggctttggatatgtcaaaatttatatttgttgtttctatatggattgtatgaagtaattattgggattgtcttggct---agattgcagATTCAGAGGCTAAGTGGAGTGGATTCTGATTTTTCTCCACTTTTGCAACATGCAGGGGTTCCTTCTGTTGATTTATACTATGGAAGAG
upper sequence: GLYMA19G39080.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv00s0327g00020.t01 (Vitis vinifera), 3'ss of exon 3
-tattataa-taatg--tctgtttttcccattttttttcaaagtgggtttcaactttgtcgtggtatcctcattgctaagccacttttgttttgttggttgcagATTCAGAGGCTCAGTGGAGTAGATTCCGATTTTGCTCCATTTGTGCAACACGCAGGGGTTCCATCCATTGACATGTATTATGGAAGAG
|||||| | ||| | || | | || ||| | || | || | | | || | | ||| | | | || || | ||||||||||||||||| |||||||| ||||| |||||| ||||| || ||||||| ||||||||||| || |||| | || ||||||||||
gctttataaattatggctttggatatgtcaaaatttatatttgttgtttctatatggattgta-tgaagtaattattgggattgtcatggtt---ggattgcagATTCAGAGGCTAAGTGGAGTGGATTCTGATTTTTCTCCACTTTTGCAACATGCAGGGGTTCCTTCTGTTGATTTATACTATGGAAGAG
upper sequence: GLYMA19G39080.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv08s0032g00670.t01 (Vitis vinifera), 3'ss of exon 4
-tattataa-taatg--tctgtttttcccattttttttcaaagtgggtttcaactttgtcgtggtatcctcattgctaagccacttttgttttgttggttgcagATTCAGAGGCTCAGTGGAGTAGATTCCGATTTTGCTCCATTTGTGCAACACGCAGGGGTTCCATCCATTGACATGTATTATGGAAGAG
|||||| | ||| | || | | || ||| || || | |||| | | | | | | ||| | | | ||| | | |||||||| |||||||| |||||||| ||||| |||||||||||| || ||||||| ||||||||||| || |||| | || ||||||||||
gctttataaattatggctttggatatgtcaaaatttatctttgttg-tttctatatggactgtatgaagtaattattgggattgtcttggct---ggattgcagATCCAGAGGCTAAGTGGAGTGGATTCTGATTTTGCTCCACTTTTGCAACATGCAGGGGTTCCTTCTGTTGATTTATACTATGGAAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaactttgtcgtggtatcctcattgctaagccacttttgttttgttggttgcagATTCAGAGGCTCAGTGGAGTAGATTCCGATTTTGCTCCATTTGTGCAACACGCAGGGGTTCCATCCATTGACATGTATTATGGAAGAG
ttttgtt CT-rich tract
ttttgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattataataatgtctgtttttcccattttttttcaaagtgggtttcaactttgtcgtggtatcctcattgctaagccacttttgttttgttggttgcagATTCAGAGGCTCAGTGGAGTAGATTCCGATTTTGCTCCATTTGTGCAACACGCAGGGGTTCCATCCATTGACATGTATTATGGAAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - gtctgtt
- - - - - - - - - -tttccca
- - - - - - - - - - - - - - - - - - - gtgggtt
- - - - - - - - - - - - - - - - - - - - - - - - - - tgtcgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctaag