Sequence
atgc intronic sequence ATGC exonic sequence...gcctatgttattcttcattcttttaataccttgctaacatacatgcggcaatctttagtttggaactttgttagtgatgttttaaattgtttgtttgcagCGATTTGTTGCCTTAAAAATTCAAAAGAGTGCTCAGCATTACACTGAAGCGGCAATGGATGAAATAAAGATTCTTAAACAAATTGCTGACGGGGATCCAG
Basic information
species | Glycine max |
transcript | GLYMA17G05480.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G05480.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G22840.1 (Arabidopsis thaliana), 3'ss of exon 1
gcctatgttattct-tcattcttttaataccttgctaacatacatgcggcaatcttta-gtttggaactttgttagtgatgttttaaattgtttgtttgcagCGATTTGTTGCCTTAAAAATTCAAAAGAGTGCTCAGCATTACACTGAAGCGGCAATGGATGAAATAAAGATTCTTAAACAAATTGCTGACGGGGATCCAG
| || | | | || | || ||| | | | | ||| || | | || || || ||| | ||| || | |||||||| |||||| || || || ||||| || |||||||||||||| |||||||||||||| |||||||| |||||||| | ||||| ||||| || || ||| | |
-attgaattgcattgttgtgattgaactagctttgttagaga-atgaggaagttcttgtagttagagaattgaatcttgcctttgaattcatttgtttgtagCGATACGTAGCTTTGAAAATCCAGAAGAGTGCTCAGCACTACACTGAAGCGGCCATGGATGAGATAAAGATATTGAAACAGATTGCAGAAGGCGATGCGG
upper sequence: GLYMA17G05480.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G44850.1 (Arabidopsis thaliana), 3'ss of exon 1
gcctatgttattcttcattcttttaataccttgctaacatacatgcggcaatctttagtt-tggaactttgttagtgatgttttaaa---ttgtttgtttgcagCGATTTGTTGCCTTAAAAATTCAAAAGAGTGCTCAGCATTACACTGAAGCGGCAATGGATGAAATAAAGATTCTTAAACAAATTGCTGACGGGGATCCAG
| || || | | | | | ||| || | | || ||| ||||| | | || | |||| ||||| || | ||| | || |||| | ||| || || ||| |||| ||||||||||| ||||| || || || ||||||||||| ||||||||| | ||||| || ||||| || || | |
--ttgacttgttgtagagaaatgctaaaggttg--aatctttaggcttagatcagtagttctttagtttcatgtgtgaagttttgaaagttcttttttgtgtagCGTTATGTAGCTTTGAAAGTTCAGAAGAGTGCTCAACATTATACAGAGGCAGCAATGGATGAGATAAAGATTTTGAAACAGATAGCTGAAGGTGACTCGG
upper sequence: GLYMA17G05480.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv06s0061g01050.t01 (Vitis vinifera), 3'ss of exon 1
gcctatgttattcttcattcttttaataccttgctaacatacatgcgg--caatctttagtttggaactttgttagtgatgttttaaattgtttgtttgcagCGATTTGTTGCCTTAAAAATTCAAAAGAGTGCTCAGCATTACACTGAAGCGGCAATGGATGAAATAAAGATTCTTAAACAAATTGCTGACGGGGATCCAG
| | || | | | || | || || | | ||| | | || |||| | | | || | ||| ||| | | || || || || || || ||| |||||||||||||| ||||||| ||||| || || |||||||| |||| || || ||||| |||||||| || || ||||
gttccttttttccatatgtcaagcactatattatgtatttccatatgtttccatttttaactgttcatcgttttgataatgca--aaaccctaattctgtagAAATACGTCGCTTTGAAAGTTCAAAAGAGTGCTAAGCATTATACTGAGGCAGCCATGGATGAGATAACCATACTGAAACAGATTGCTGAGGGAGACCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cggcaatctttagtttggaactttgttagtgatgttttaaattgtttgtttgcagCGATTTGTTGCCTTAAAAATTCAAAAGAGTGCTCAGCATTACACTGAAGCGGCAATGGATGAAATAAAGATTCTTAAACAAATTGCTGACGGGGATCCAG
tttgttt CT-rich tract
ttttaaattgtttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcctatgttattcttcattcttttaataccttgctaacatacatgcggcaatctttagtttggaactttgttagtgatgttttaaattgtttgtttgcagCGATTTGTTGCCTTAAAAATTCAAAAGAGTGCTCAGCATTACACTGAAGCGGCAATGGATGAAATAAAGATTCTTAAACAAATTGCTGACGGGGATCCAG
-cctatgt
- - - - - - -ttcattc
- - - - - - - - - - - - - - ccttgct
- - - - - - - - - - - - - - - - - - - -tacatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatgtt