Sequence
atgc intronic sequence ATGC exonic sequence...acatcatggatgcatattatgtaggcatttgatttctgtcactgatcaaacattttactaacttttacttattgatgatgtagtttatttttaatttcagGAAGCCAACAATCGTAGCAGCAACTGGTTACCTCCTCCATGGGCGATTGTGGCTTTGATTATTCTTGGATTTAATGAATTTATGACACTTTTAAG
Basic information
species | Glycine max |
transcript | GLYMA15G02780.1 |
intron # | 20 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G02780.1 (Glycine max), 3'ss of exon 20
lower sequence: AT3G13870.1 (Arabidopsis thaliana), 3'ss of exon 20
acatcatggatgcatat-tatgtaggcatttgatttctg-tcactgatcaaacattttactaacttttacttattgatgatgtagtttatttttaatttcagGAAGCCAACAATCGTAGCAGCAACTGGTTACCTCCTCCATGGGCGATTGTGGCTTTGATTATTCTTGGATTTAATGAATTTATGACACTTTTAAG
| | | | | | | | | ||| || | | | ||| | || | | ||| | || ||| | | || |||||||||||| ||| || | | ||||||| | || ||||||||||| || | || || || ||||||||||||||||||||||||| || |||||
--tttctagcttcttgtctcctttctcatctgttctttaatcagctaacacccggaaaaataattgaggtttcaatctgaataaagtctccttggatttcagGAAGCTAACCGACGGAATAACAACTGGCTGCCACCTCCATGGGCAATCCTTGCCCTGGTTGTTCTTGGATTTAATGAATTTATGACTCTCTTAAG
upper sequence: GLYMA15G02780.1 (Glycine max), 3'ss of exon 20
lower sequence: AT1G72960.1 (Arabidopsis thaliana), 3'ss of exon 19
acatcatggatgcatattatgtaggcatt-tgatttctgtcactgatcaaacattttactaacttttacttattgatgatgtagtttatttttaat--ttcagGAAGCCAACAATCGTAGCAGCAACTGGTTACCTCCTCCATGGGCGATTGTGGCTTTGATTATTCTTGGATTTAATGAATTTATGACACTTTTAAG
|||| | | || ||| | | | || ||| || | | | | || || | ||| || | ||||||| || |||| ||| | | ||||||||||||||||||||||| ||| | || ||||| | |||||||| || ||||| ||||| ||||||||
------------------------gcatgattactttcctcataagttag-ctcttcactctgcttatatgaatacttatataaagtgtttatactaattcagGAGGCGAACAGGCGTGGAAATAACTGGTTACCTCCTCCATGGGCAATTCTTGCATTGATCGTCCTTGGATTCAACGAATTCATGACTCTTTTAAG
upper sequence: GLYMA15G02780.1 (Glycine max), 3'ss of exon 20
lower sequence: Vv09s0002g02200.t01 (Vitis vinifera), 3'ss of exon 20
-----acatcatggatgcatattatgtaggcatttgatttctgtcactgatcaaacattttactaacttttacttattgatgatgtagtttatttttaatttcagGAAGCCAACAATCGTAGCAGCAACTGGTTACCTCCTCCATGGGCGATTGTGGCTTTGATTATTCTTGGATTTAATGAATTTATGACACTTTTAAG
|| | || | | ||| | |||| | || | || | | | || | || |||| | | ||| | | ||||||||||||||| |||| | |||||||||||| ||||||||||| ||||| ||| || | | || ||||| |||||||||||||||||| ||||
caatattttctttgagaaacagtatcaaaatatttca---ctaaccatgccccattacc--gtcaatggtatctaattgttttcacttcctctttcaattatcagGAAGCCAACAAGCGTAATAACAACTGGTTACCACCTCCATGGGCAATTGTTGCTATGGTCGTCCTGGGATTCAATGAATTTATGACACTTCTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaaacattttactaacttttacttattgatgatgtagtttatttttaatttcagGAAGCCAACAATCGTAGCAGCAACTGGTTACCTCCTCCATGGGCGATTGTGGCTTTGATTATTCTTGGATTTAATGAATTTATGACACTTTTAAG
tttattttt CT-rich tract
ttttacttattgatga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acatcatggatgcatattatgtaggcatttgatttctgtcactgatcaaacattttactaacttttacttattgatgatgtagtttatttttaatttcagGAAGCCAACAATCGTAGCAGCAACTGGTTACCTCCTCCATGGGCGATTGTGGCTTTGATTATTCTTGGATTTAATGAATTTATGACACTTTTAAG
- - - -ggatgca
- - - - - - - - -tatgtag
- - - - - - - - - - - - gcatttg
- - - - - - - - - - - - - - - - - -ctgtcac
- - - - - - - - - - - - - - - - - - - - - - - caaacat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gatgatg