Sequence
atgc intronic sequence ATGC exonic sequence...ttttgtcatgtgcattttagtttattacattgatattttgcatacatagcatcacttgttaaacattattagcgtgtaatctgttgtttgcttggtacagATTTATGCGGAGTCCCTAGCACGCTTTCAAGGAGGTTCACCTTACATATATCCACTCTATGGACTGGGAGAGTTGCCTCAG
Basic information
species | Glycine max |
transcript | GLYMA08G07250.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G07250.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv03s0017g00490.t01 (Vitis vinifera), 3'ss of exon 5
--ttttgtcatgtgcattttagtttattacattgatattttg-catacatagcatcacttgttaaacattattagcgtgtaatctgttgtttgcttggtacagATTTATGCGGAGTCCCTAGCACGCTTTCAAGGAGGTTCACCTTACATATATCCACTCTATGGACTGGGAGAGTTGCCTCAG
|| | | || ||| | ||| || ||| ||| | || | | | | | | | | || | || || | |||| || || | ||||| |||||| | ||||||||||||||||| || || || || |||||| | |||||| |||| || |||||||||
tacttaatta-gttcatgagattttgttgttcctttatgttgacttaattggaagtgaatttattagttcactaattctttttcacttat--gctttataaagCTCTATGCAGAGTCCTTGGCACGCTTTCAAGGAGGATCTCCCTATATCTATCCAATGTATGGATTGGGGGAATTGCCTCAG
upper sequence: GLYMA08G07250.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S20_16V6.1 (Physcomitrella patens), 3'ss of exon 6
----------------------------ttttgtcatgtgcattttagtttattacat-tgatatttt-gcatacatagcatcacttgttaaacattattagcgtgtaatctg--------ttgtttgcttggtacagATTTATGCGGAGTCCCTAGCACGCTTTCAAGGAGGTTCACCTTACATATATCCACTCTATGGACTGGGAGAGTTGCCTCAG
||| || || ||||| | || | ||| || || | |||| | | | || || || | || ||| || ||| |||||| ||| | || || ||||| | || || ||||||||||| ||||||||||| ||||||||||| || || || |||||||| |||
gtatgcctttatttcctgctaacacactccctgttatagctcattctgtttaatccacacgttatcttcacaagatttttatcagctctacagttttgttcgc-tacaacctgagttgtcttttttttcttggtgcagTTGTACGCAGAGTCAATGGCCCGGTTTCAAGGAGGATCACCTTACATCTATCCACTCTACGGCCTCGGCGAGTTGCCACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atagcatcacttgttaaacattattagcgtgtaatctgttgtttgcttggtacagATTTATGCGGAGTCCCTAGCACGCTTTCAAGGAGGTTCACCTTACATATATCCACTCTATGGACTGGGAGAGTTGCCTCAG
tttgctt CT-rich tract
ttgttaaacattatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttgtcatgtgcattttagtttattacattgatattttgcatacatagcatcacttgttaaacattattagcgtgtaatctgttgtttgcttggtacagATTTATGCGGAGTCCCTAGCACGCTTTCAAGGAGGTTCACCTTACATATATCCACTCTATGGACTGGGAGAGTTGCCTCAG
- -tgtcatg
- - - - - tgcattt
- - - - - - - - - - - - - - - - - - - -gcataca
- - - - - - - - - - - - - - - - - - - - - - - - - - cacttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcgtgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tctgttg