Sequence
atgc intronic sequence ATGC exonic sequencegtacttcttaatcactttaaacttttgaacagttatcgatcttccaactttgtgttaggtaatttatcatcacttccctgtttggtggcagCTATACAGCACTGTTACTCTAAGACAAGGTGAGAAGAAGCATTACAACCACAAGGTGGATGCCTACAGCTTTGCAATTGTGTTGTGGGAACTCATCCATA
Basic information
species | Glycine max |
transcript | GLYMA05G09120.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G09120.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G165231_T01 (Zea mays), 3'ss of exon 4
gtacttcttaatcactttaaacttttgaacagttatcgatcttccaactttgtgttaggtaatttatcatcacttccctgtttggtggcagCTATACAGCACTGTTACTCTAAGACAAGGTGAGAAGAAGCATTACAACCACAAGGTGGATGCCTACAGCTTTGCAATTGTGTTGTGGGAACTCATCCATA
|| || | | | | |||| |||| || || ||| ||| | ||| || | || | || ||| | |||||||| || || || || || || || |||||||||||||||||||| || |||| ||||||||||||||||||||||||||||||| |||| |
---gtttctactgcatccatattttt----agtttctgagtccttaattttctgt---attattaat-gtaacctgggaattcta-aacagTTGTACAGCACAGTAACACTGAGGCATGGAGAAAAGAAGCATTACAACCACAAAGTAGATGTCTACAGCTTTGCAATTGTGTTGTGGGAACTCCTCCACA
upper sequence: GLYMA05G09120.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv17s0000g09290.t01 (Vitis vinifera), 3'ss of exon 4
gtacttcttaatcactttaaacttttgaacagttatcgatcttccaactttgtgttaggtaatttatcatca-cttccctgtttggtggcagCTATACAGCACTGTTACTCTAAGACAAGGTGAGAAGAAGCATTACAACCACAAGGTGGATGCCTACAGCTTTGCAATTGTGTTGTGGGAACTCATCCATA
|||||| | ||| ||| || || || || | | |||| | | ||| | ||| | | ||||||||| | ||||| ||||| || |||| || || ||||||||||| |||||| |||| |||||||| || |||||||| ||||| |||||||| || | ||||
gtactt--tgttcagaa-aaatgcatgcttcttttgttattttgcttttctgtggccacttcagaaccatgaactttgttatctggtggcagTTGTACAGTACTGTGACATTAAGGCATGGAGAGAAGAAGCACTACAACAACAAAGTGGATGCTTATAGCTTTGCCATTGTCTTGTGGGAGCTTTTACATA
upper sequence: GLYMA05G09120.1 (Glycine max), 3'ss of exon 4
lower sequence: EFJ07184 (Selaginella moellendorffii), 3'ss of exon 4
gtacttcttaatcactttaaacttttgaacagttatcgatcttccaactttgtgttaggtaatttatcatcacttccctgtttggtggcagCTATACAGCACTGTTACTCTAAGACAAGGTGAGAAGAAGCATTACAACCACAAGGTGGATGCCTACAGCTTTGCAATTGTGTTGTGGGAACTCATCCATA
| | | | | || |||||||| ||||| || || | | | || | | | |||||| |||||||| || || |||||| | || || ||||||||||| || || |||||||| | ||||||||||||||| ||||||||||| || | |
---------------gtcagatatgctcttatccat-aatcttcca-ttttgtactaa--aacaaaacctt-ctcttttactccctcgcagCTCTACAGCACGGTGACGCTAAGAAACGGCGAAAAGAAGCATTATAATCAAAAGGTGGACGTCTACAGCTTTGCAATCGTGTTGTGGGAGCTGCTGACCA
upper sequence: GLYMA05G09120.1 (Glycine max), 3'ss of exon 4
lower sequence: EFJ09179 (Selaginella moellendorffii), 3'ss of exon 4
gtacttcttaatcactttaaacttttgaacagttatcgatcttccaactttgtgttaggtaatttatcatcacttccctgtttggtggcagCTATACAGCACTGTTACTCTAAGACAAGGTGAGAAGAAGCATTACAACCACAAGGTGGATGCCTACAGCTTTGCAATTGTGTTGTGGGAACTCATCCATA
| | | | | || |||||||| |||||| || || | | | || | | | |||||| |||||||| || || |||||| | || || ||||||||||| || || |||||||| | |||||||||||| || ||||||||||| || | |
---------------gtgagatatgctcttatccat-aatcttcca-ttttgtgctaa--aacaaaacctt-ctcttttactccctcgcagCTCTACAGCACGGTGACGCTAAGAAACGGCGAAAAGAAGCATTATAATCAAAAGGTGGACGTCTACAGCTTTGCCATCGTGTTGTGGGAGCTGCTGACCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgatcttccaactttgtgttaggtaatttatcatcacttccctgtttggtggcagCTATACAGCACTGTTACTCTAAGACAAGGTGAGAAGAAGCATTACAACCACAAGGTGGATGCCTACAGCTTTGCAATTGTGTTGTGGGAACTCATCCATA
tcacttccctgttt CT-rich tract
taatttatcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttcttaatcactttaaacttttgaacagttatcgatcttccaactttgtgttaggtaatttatcatcacttccctgtttggtggcagCTATACAGCACTGTTACTCTAAGACAAGGTGAGAAGAAGCATTACAACCACAAGGTGGATGCCTACAGCTTTGCAATTGTGTTGTGGGAACTCATCCATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA