Sequence
atgc intronic sequence ATGC exonic sequencegtacttcttaaccactttaaactttgaacagttatcgatcttccaattttgtgttaggtaatttatcattacttccctgtttgatggcagCTTTACAGCACTGTTACTCTAAGACAAGGTGAGAAGAAGCATTACAACCACAAGGTGGATGCCTACAGCTTTGCAATTGTGTTGTGGGAACTCATCCATA
Basic information
species | Glycine max |
transcript | GLYMA19G00650.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G00650.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G165231_T01 (Zea mays), 3'ss of exon 4
gtacttcttaaccactttaaactttgaacagttatcgatcttccaattttgtgttaggtaatttatcattacttccctgtttgatggcagCTTTACAGCACTGTTACTCTAAGACAAGGTGAGAAGAAGCATTACAACCACAAGGTGGATGCCTACAGCTTTGCAATTGTGTTGTGGGAACTCATCCATA
|| || | | | ||| |||| || |||||| ||| | ||| || | || | || | ||| | |||||||| || || || || || || || |||||||||||||||||||| || |||| ||||||||||||||||||||||||||||||| |||| |
---gtttctactgcatccatatttt---tagtttctgagtccttaattttctgt---attattaat-gtaacctgggaattcta-aacagTTGTACAGCACAGTAACACTGAGGCATGGAGAAAAGAAGCATTACAACCACAAAGTAGATGTCTACAGCTTTGCAATTGTGTTGTGGGAACTCCTCCACA
upper sequence: GLYMA19G00650.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv17s0000g09290.t01 (Vitis vinifera), 3'ss of exon 4
gtacttcttaaccactttaaactttgaacagttatcgatcttccaattttgtgttaggtaatttatcatta-cttccctgtttgatggcagCTTTACAGCACTGTTACTCTAAGACAAGGTGAGAAGAAGCATTACAACCACAAGGTGGATGCCTACAGCTTTGCAATTGTGTTGTGGGAACTCATCCATA
|||||| | || || || || || || | || |||| | | ||| | ||| | | || |||||| | ||||| ||||| || |||| || || ||||||||||| |||||| |||| |||||||| || |||||||| ||||| |||||||| || | ||||
gtactt--tgttcagaaaaatgcatgcttcttttgttattttgcttttctgtggccacttcagaaccatgaactttgttatctggtggcagTTGTACAGTACTGTGACATTAAGGCATGGAGAGAAGAAGCACTACAACAACAAAGTGGATGCTTATAGCTTTGCCATTGTCTTGTGGGAGCTTTTACATA
upper sequence: GLYMA19G00650.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ07184 (Selaginella moellendorffii), 3'ss of exon 4
gtacttcttaaccactttaaactttgaacagttatcgatcttccaattttgtgttaggtaatttatcattacttccctgtttgatggcagCTTTACAGCACTGTTACTCTAAGACAAGGTGAGAAGAAGCATTACAACCACAAGGTGGATGCCTACAGCTTTGCAATTGTGTTGTGGGAACTCATCCATA
| | | | | |||||||| |||||| || || | | || || | | | |||||| |||||||| || || |||||| | || || ||||||||||| || || |||||||| | ||||||||||||||| ||||||||||| || | |
---------------gtcagatatgctcttatccataatcttcca-ttttgtactaa--aacaaaacctt-ctcttttactccctcgcagCTCTACAGCACGGTGACGCTAAGAAACGGCGAAAAGAAGCATTATAATCAAAAGGTGGACGTCTACAGCTTTGCAATCGTGTTGTGGGAGCTGCTGACCA
upper sequence: GLYMA19G00650.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ09179 (Selaginella moellendorffii), 3'ss of exon 4
gtacttcttaaccactttaaactttgaacagttatcgatcttccaattttgtgttaggtaatttatcattacttccctgtttgatggcagCTTTACAGCACTGTTACTCTAAGACAAGGTGAGAAGAAGCATTACAACCACAAGGTGGATGCCTACAGCTTTGCAATTGTGTTGTGGGAACTCATCCATA
| | | | | |||||||| ||||||| || || | | || || | | | |||||| |||||||| || || |||||| | || || ||||||||||| || || |||||||| | |||||||||||| || ||||||||||| || | |
---------------gtgagatatgctcttatccataatcttcca-ttttgtgctaa--aacaaaacctt-ctcttttactccctcgcagCTCTACAGCACGGTGACGCTAAGAAACGGCGAAAAGAAGCATTATAATCAAAAGGTGGACGTCTACAGCTTTGCCATCGTGTTGTGGGAGCTGCTGACCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgatcttccaattttgtgttaggtaatttatcattacttccctgtttgatggcagCTTTACAGCACTGTTACTCTAAGACAAGGTGAGAAGAAGCATTACAACCACAAGGTGGATGCCTACAGCTTTGCAATTGTGTTGTGGGAACTCATCCATA
gtttgat putative branch site (score: 5)
ttacttccctgttt CT-rich tract
taatttatcattactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttcttaaccactttaaactttgaacagttatcgatcttccaattttgtgttaggtaatttatcattacttccctgtttgatggcagCTTTACAGCACTGTTACTCTAAGACAAGGTGAGAAGAAGCATTACAACCACAAGGTGGATGCCTACAGCTTTGCAATTGTGTTGTGGGAACTCATCCATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA