Sequence
atgc intronic sequence ATGC exonic sequence...ttgaaagtaagaaaaatacaatttatctttcaaaataaatcaatggtgatgaaagatcacatatttgttgcttagcaggttttatcttggttgattgcagATTCAAAGGCTCAGTGGTGTTGATTCTGATTTCGCTCCATTTGTGCAACATGCAGGGGTTCCATCTGTTGATGTATATTATGGAAAAG
Basic information
species | Glycine max |
transcript | GLYMA10G11100.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G11100.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv00s0352g00020.t01 (Vitis vinifera), 3'ss of exon 4
ttgaaagtaagaaaaatacaattt---atctttcaaaataaatcaatggtgatgaaagatcacatatttgttgct-tagcaggttttatcttggttg-attgcagATTCAAAGGCTCAGTGGTGTTGATTCTGATTTCGCTCCATTTGTGCAACATGCAGGGGTTCCATCTGTTGATGTATATTATGGAAAAG
| ||| || || || | ||||||| ||| || || | | || | | || | | || || |||||| | |||||||||||||||||| ||||| || |||| |||||| |||||| || ||||||||||||||||||| ||||||||| |||| ||||||| ||
-----gctttataaattatggctttggatatgtcaaaatttatctttgttgtttctatatggattgtatgaagtaattattgggattgtcttggcgggattgcagATTCAAAGGCTAAGTGGAGTGGATTATGATTTTGCTCCACTTTTGCAACATGCAGGGGTTCCTTCTGTTGATTTATACTATGGAAGAG
upper sequence: GLYMA10G11100.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv00s0285g00060.t01 (Vitis vinifera), 3'ss of exon 4
ttgaaagtaagaaaaatacaattt---atctttcaaaataaatcaatggtgatgaaagatcacatatttgttgct-tagcaggttttatcttggttg-attgcagATTCAAAGGCTCAGTGGTGTTGATTCTGATTTCGCTCCATTTGTGCAACATGCAGGGGTTCCATCTGTTGATGTATATTATGGAAAAG
| ||| || || || | ||||||| ||| || | | | || | | || | | || || |||||| || |||||||||||| ||||| ||||| || ||||||||||| |||||| || ||||||||||||||||||| ||||||||| |||| ||||||| ||
-----gctttataaattatggctttggatatgtcaaaatttatctttgttttttctatatggattgtatgaagtaattattgggattgtcttggctggattgcagATTCAGAGGCTAAGTGGAGTGGATTCTGATTTTGCTCCACTTTTGCAACATGCAGGGGTTCCTTCTGTTGATTTATACTATGGAAGAG
upper sequence: GLYMA10G11100.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv00s0319g00060.t01 (Vitis vinifera), 3'ss of exon 3
ttgaaagtaagaaaaatacaattt--atctttcaaaataaatcaatggtgatgaaagatcacatatttgttgct-tagcaggttttatcttggtt-gattgcagATTCAAAGGCTCAGTGGTGTTGATTCTGATTTCGCTCCATTTGTGCAACATGCAGGGGTTCCATCTGTTGATGTATATTATGGAAAAG
| | ||| | ||| || | ||||||| || || || | | || | | || | | || || |||||| | ||||||||||||| ||||| ||||| || ||||||||||| ||||| || ||||||||||||||||||| ||||||||| |||| ||||||| ||
----gctttataaattttggctttggatatgtcaaaatttatatttgttgtttctatatggattgtatgaagtaattattgggattgtcttggctagattgcagATTCAGAGGCTAAGTGGAGTGGATTCTGATTTTTCTCCACTTTTGCAACATGCAGGGGTTCCTTCTGTTGATTTATACTATGGAAGAG
upper sequence: GLYMA10G11100.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv00s0327g00020.t01 (Vitis vinifera), 3'ss of exon 3
ttgaaagtaagaaaaatacaattt---atctttcaaaataaatcaatggtgatgaaagatcacatatttgttgct-tagcaggttttatcttggttg-attgcagATTCAAAGGCTCAGTGGTGTTGATTCTGATTTCGCTCCATTTGTGCAACATGCAGGGGTTCCATCTGTTGATGTATATTATGGAAAAG
| ||| || || || | ||||||| || || || | | || | | || | | || || || |||||| |||||||||||| ||||| ||||| || ||||||||||| ||||| || ||||||||||||||||||| ||||||||| |||| ||||||| ||
-----gctttataaattatggctttggatatgtcaaaatttatatttgttgtttctatatggattgtatgaagtaattattgggattgtcatggttggattgcagATTCAGAGGCTAAGTGGAGTGGATTCTGATTTTTCTCCACTTTTGCAACATGCAGGGGTTCCTTCTGTTGATTTATACTATGGAAGAG
upper sequence: GLYMA10G11100.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv08s0032g00670.t01 (Vitis vinifera), 3'ss of exon 4
ttgaaagtaagaaaaatacaattt---atctttcaaaataaatcaatggtgatgaaagatcacatatttgttgct-tagcaggttttatcttggttg-attgcagATTCAAAGGCTCAGTGGTGTTGATTCTGATTTCGCTCCATTTGTGCAACATGCAGGGGTTCCATCTGTTGATGTATATTATGGAAAAG
| ||| || || || | ||||||| ||| || || | | || | | || | | || || |||||| || ||||||||| || ||||| ||||| || ||||||||||| |||||| || ||||||||||||||||||| ||||||||| |||| ||||||| ||
-----gctttataaattatggctttggatatgtcaaaatttatctttgttgtttctatatggactgtatgaagtaattattgggattgtcttggctggattgcagATCCAGAGGCTAAGTGGAGTGGATTCTGATTTTGCTCCACTTTTGCAACATGCAGGGGTTCCTTCTGTTGATTTATACTATGGAAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgatgaaagatcacatatttgttgcttagcaggttttatcttggttgattgcagATTCAAAGGCTCAGTGGTGTTGATTCTGATTTCGCTCCATTTGTGCAACATGCAGGGGTTCCATCTGTTGATGTATATTATGGAAAAG
ggttgat putative branch site (score: 5)
atatttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgaaagtaagaaaaatacaatttatctttcaaaataaatcaatggtgatgaaagatcacatatttgttgcttagcaggttttatcttggttgattgcagATTCAAAGGCTCAGTGGTGTTGATTCTGATTTCGCTCCATTTGTGCAACATGCAGGGGTTCCATCTGTTGATGTATATTATGGAAAAG
- - - - - -aaaaata
- - - - - - - - - - - - - - - -aaaataa
- - - - - - - - - - - - - - - - - - - - - - ggtgatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgct