Sequence
atgc intronic sequence ATGC exonic sequence...cattgtagaaaatttctgtttagctgctatatccttttggatggttatcttatttgttaactgagcattcattcttaattcttttgcttgatttttcaggTAGATTATGATGAGGCCATTTTTTTGTGGCGTGTAGATAAGAAAGATTTTCTTCTTTGGACCATTACTAGCACTACAACATTGTTCCTTGGTATTGAGAT
Basic information
species | Glycine max |
transcript | GLYMA18G52270.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G52270.1 (Glycine max), 3'ss of exon 11
lower sequence: AT3G12520.2 (Arabidopsis thaliana), 3'ss of exon 12
-----------------cattgtagaaaatttctgtttagctgctatatccttttggatggttatcttatttgttaactgagcattcattcttaattcttttgcttgatttttcaggTAGATTATGATGAGGCCATTTTTTTGTGGCGTGTAGATAAGAAAGATTTTCTTCTTTGGACCATTACTAGCACTACAACATTGTTCCTTGGTATTGAGAT
|| | || | | | | | || ||| | || | | || || | | | | | |||| |||||| | || || | | |||| || ||||| | ||| || ||| |||||||||| || |||| ||||||| |||||||||||| |||||||| || || |||||| |||| || ||||
gtaagttcaaataaacccaccagaaaagaatctggggtgtgtact-tattgtctttggttattgagcaatatat--attca-catttattctt--tctggatgtttaccatattagGTGGACTATGAAGGGGCAATCTTTCTGTGGCGTGTGGACAAGAGAGATTTTACTCTTTGGACCATCACTAGCACCACCACTTTGTTCTTTGGAATAGAGA-
upper sequence: GLYMA18G52270.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv13s0019g00010.t01 (Vitis vinifera), 3'ss of exon 11
--------cat-tgtagaaaatttctgtttagctgctatatccttttggatggttatcttatttgttaactgagcattcattcttaattcttttgcttgatttttcaggTAGATTATGATGAGGCCATTTTTTTGTGGCGTGTAGATAAGAAAGATTTTCTTCTTTGGACCATTACTAGCACTACAACATTGTTCCTTGGTATTGAGAT
||| | |||| | | || | || |||| | | || | | ||| ||| || |||| ||| || || || || |||||||| ||||||||||| || |||||||| |||||||||||||||||||||||||||||||||||| |||| ||||||| ||||||||||||||||||||||
attattttcatatatagagtaacttacttgggttg----atccataagagtga--gtttcattggtttggcga-tgttcaatctct-ttgttatgtttataatttcagGTGGATTATGATGAAGCTATTTTTTTATGGCGTGTAGATAAGAAAGATTTTCTTCTTTGGACCCTTACCAGCACTATGACATTGTTCCTTGGTATTGAGA-
upper sequence: GLYMA18G52270.1 (Glycine max), 3'ss of exon 11
lower sequence: PP1S53_215V6.1 (Physcomitrella patens), 3'ss of exon 11
---------------cattgtagaaaatttctgtt----tagctgctatatccttttgga----tggttatcttatttgttaactgagcattcattcttaattcttttgcttg----------atttttcaggTAGATTATGATGAGGCCATTTTTTTGTGGCGTGTAGATAAGAAAGATTTTCTTCTTTGGACCATTACTAGCACTACAACATTGTTCCTTGGTATTGAGAT
| | |||| || ||| |||| || || | | || || | || | | | || | | || |||| | || | | ||||| |||||||||||||| || ||||||||||| || || ||||| || |||||||| ||| |||||| ||| ||| | || ||||| ||||||
gtatatcttctaacctggtacacaaaaccatgattaccctagaaactatctcgcagtgaggttgcgatcattttttaattttattacacctttgtagtcaaatcttgttagtgtggatgtaatacgctgcagGTTGATTATGATGAGGCAATATTTTTGTGGCGAGTGGACAAGAAGGACTTTCTTCTCTGGCTTTCTACTAGTACTTTAACGCTTTTTCTTGGCATTGAGG- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatcttatttgttaactgagcattcattcttaattcttttgcttgatttttcaggTAGATTATGATGAGGCCATTTTTTTGTGGCGTGTAGATAAGAAAGATTTTCTTCTTTGGACCATTACTAGCACTACAACATTGTTCCTTGGTATTGAGAT
tttttc CT-rich tract
attcttaattctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cattgtagaaaatttctgtttagctgctatatccttttggatggttatcttatttgttaactgagcattcattcttaattcttttgcttgatttttcaggTAGATTATGATGAGGCCATTTTTTTGTGGCGTGTAGATAAGAAAGATTTTCTTCTTTGGACCATTACTAGCACTACAACATTGTTCCTTGGTATTGAGAT
- - - - - - -ttctgtt
- - - - - - - - - - tagctgc
- - - - - - - - - - - - - - - - - - -tggatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcattca