Sequence
atgc intronic sequence ATGC exonic sequence...attctgtatggtgtacttggagggcattttatcctgctgtttggtctctttccctattctaatcactttcccccctcttatcaacaaatgtatgttgcagTGGTAAAAGTATCGAGCTTGATGATGTCACTTTCCATCAATGTGTAAATTTGACAAGGTTCAACTCAGAGAAGACTGTTAGTTTTGTACCACCTGATGGT
Basic information
species | Glycine max |
transcript | GLYMA17G16630.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G16630.2 (Glycine max), 3'ss of exon 6
lower sequence: AT5G46630.1 (Arabidopsis thaliana), 3'ss of exon 7
attctgtatggtgtacttggagggcattttatcctgctgtttggtctctttccctattctaatcactttcccccct-cttatcaacaaatgtatgttgcagTGGTAAAAGTATCGAGCTTGATGATGTCACTTTCCATCAATGTGTAAATTTGACAAGGTTCAACTCAGAGAAGACTGTTAGTTTTGTACCACCTGATGGT
| || || | | | | | | | ||||| | | || | || || | ||||||||||||| || ||||||||||||||||| || || || ||||| || |||| || |||||||| |||||||||||||||||||||||||| |||||
--------------------------gtatacgttgttaatacattgaacatcagtagccactgacttttctttgtgctaactgactctcgttttgtgcagTGGTAAAACCATTGAGCTTGATGATGTCACATTTCACCAGTGTGTGAACCTGACCAGATTCAACTCCGAGAAGACTGTTAGTTTTGTACCACCGGATGGA
upper sequence: GLYMA17G16630.2 (Glycine max), 3'ss of exon 6
lower sequence: PP1S197_28V6.1 (Physcomitrella patens), 3'ss of exon 7
----------------------------------------------------------------------------attctgtatggtgtacttggagggcattttatcctgctgtttggtc-tctttccctattctaatcactttccccc---ctcttatcaacaaatgtatgttgcagTGGTAAAAGTATCGAGCTTGATGATGTCACTTTCCATCAATGTGTAAATTTGACAAGGTTCAACTCAGAGAAGACTGTTAGTTTTGTACCACCTGATGGT
||| | | | | || || | || || ||| | || | | | ||| | | || ||| | | ||||| | | | | |||||| |||| || |||||||||||||| || ||||| |||||||| ||| | ||||| |||| | |||||||| || |||||||| ||||| |||||
gttgaatgcgcatccacactcttgtgatggcttcgtttaacaatgttgccctcaagtgttttttatttttatttttattttatttactttattttttactctcattctcttgcagcttcgacatatttgggtttgaaaagtgttttacactgtgctcttgtgactcctctttcatgacagTGGGAAAACAATTGAGCTTGATGATGTTACATTCCACCAATGTGTCAATCTCACAAGATTCACTGCTGAGAAGACAGTCAGTTTTGTTCCACCCGATGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctctttccctattctaatcactttcccccctcttatcaacaaatgtatgttgcagTGGTAAAAGTATCGAGCTTGATGATGTCACTTTCCATCAATGTGTAAATTTGACAAGGTTCAACTCAGAGAAGACTGTTAGTTTTGTACCACCTGATGGT
ttctaat putative branch site (score: 2)
tattctaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attctgtatggtgtacttggagggcattttatcctgctgtttggtctctttccctattctaatcactttcccccctcttatcaacaaatgtatgttgcagTGGTAAAAGTATCGAGCTTGATGATGTCACTTTCCATCAATGTGTAAATTTGACAAGGTTCAACTCAGAGAAGACTGTTAGTTTTGTACCACCTGATGGT
- - - tatggtg
- - - - - - - - -tggaggg
- - - - - - - - - - - - - - - - -ctgctgt