Sequence
atgc intronic sequence ATGC exonic sequence...gaatattgatttgacttggtttgccatgttactggaactttgttgattttactactgagtgctgtgactgggaggaattaattggcattggtctgaacagGGATGCATATGGATTTGCAGTCAGACCACAGCATTTACAAAGATACCGAGAATATGCTAATATCTACAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0067g03420.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G44110.1 (Glycine max), 3'ss of exon 1
gaatattgatttgacttggtttgccatgttactggaactttgttg-attttactactg--agtgctgtgactgggaggaattaattggcattggt-ctgaacagGGATGCATATGGATTTGCAGTCAGACCACAGCATTTACAAAGATACCGAGAATATGCTAATATCTACAAG
| || || |||| | ||| | || ||| ||||| || | | | | || | | | |||| | |||||||||||||| ||||| ||| | || || || ||||| | ||||||||||| ||||||||||| || ||||||
----tctctgctgtttttgtttttttttttatctgtttattattggatttttttatttttatttttttggaaattaatgagtgtttggtgtgaacactgaacagGGATGCCTATGGGTTTACTGTGAGGCCTCAGCACCTGCAAAGATACCGTGAATATGCTAACATTTACAAG
upper sequence: Vv13s0067g03420.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT2G39280.1 (Arabidopsis thaliana), 3'ss of exon 1
gaatattgatttgacttggtttgccatgttactggaactt--tgttgattttactactgagtgctgtgactgggaggaattaattggcattggtct---gaacagGGATGCATATGGATTTGCAGTCAGACCACAGCATTTACAAAGATACCGAGAATATGCTAATATCTACAAG
| || | | ||| | ||| | || || || | ||||||| | | | | | ||| | | | ||||| | ||||| | |||||||||||||||||||||| | || || || |||||| | ||||||||||||||||||| |||||||||||||
-tctttttagatcactag--ttgagaatctagtgatcattgatcttgatttcatctat-attcttagtacttagggaagttaatgag-gttggttttatgaacagGGATGCATATGGATTTTCTGTGAGGCCTCAGCATGTGCAAAGATACCGAGAATATGTTAATATCTACAAG
upper sequence: Vv13s0067g03420.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT2G39280.2 (Arabidopsis thaliana), 3'ss of exon 1
-------------------------------------------------------------------------------------------gaatattg---atttgacttggt--ttgccatgttactggaactt--tgttgattttactactgagtgctgtgactgggaggaattaattggcattggtct---gaacagGGATGCATATGGATTTGCAGTCAGACCACAGCATTTACAAAGATACCGAGAATATGCTAATATCTACAAG
||| ||| ||| | | ||| | || || || | ||||||| | | | | | ||| | | | ||||| | ||||| | |||||||||||||||||||||| | || || || |||||| | ||||||||||||||||||| ||||||
gtttttgtttctaatttactacatttgatggaatttgttttttgaaattgcggtttctcagttaatctctctgctctcgatttgctgagcaaaatgttgtctttttagatcactagttgagaatctagtgatcattgatcttgatttcatctat-attcttagTACTTAGGGAAGTTAATGAG-GTTGGTTTTATGAACAGGGATGCATATGGATTTTCTGTGAGGCCTCAGCATGTGCAAAGATACCGAGAATATGTTAATAT-------
upper sequence: Vv13s0067g03420.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G55020.1 (Arabidopsis thaliana), 3'ss of exon 1
---gaatattg--atttgacttggtttgccatgttactggaactttgttgattttactactgagtgctgtgactgggaggaattaattggcattggtctgaacagGGATGCATATGGATTTGCAGTCAGACCACAGCATTTACAAAGATACCGAGAATATGCTAATATCTACAAG
||| ||| ||| || | || | | | ||| | | || || | | | | ||| | | || || ||| |||||||||||||| |||||| | |||||||| || ||| | || |||||| ||||||||||| |||| ||||||
atgcaattttgtcattggatatagtaaggtttcgt-ctgagctctggatgggcttttaatatatcgtgggaactcatatcgccttttt--tctttgtc--aacagGGATGCATACGGATTTCCTGTCAGACCTCAACATGTGCAGAGATACAGAGAATATGCTGATATTTACAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttactactgagtgctgtgactgggaggaattaattggcattggtctgaacagGGATGCATATGGATTTGCAGTCAGACCACAGCATTTACAAAGATACCGAGAATATGCTAATATCTACAAG
aattaat putative branch site (score: 3)
aattaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaatattgatttgacttggtttgccatgttactggaactttgttgattttactactgagtgctgtgactgggaggaattaattggcattggtctgaacagGGATGCATATGGATTTGCAGTCAGACCACAGCATTTACAAAGATACCGAGAATATGCTAATATCTACAAG
- - - - - -tgacttg
- - - - - - - - - - - -ccatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tgagtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgactgg