Sequence
atgc intronic sequence ATGC exonic sequence...tattgtttatgatgcttacctagttacctttatacaatatctaatatcttgccagtttactctttttttatttgtttatttagaactcgttttattgcagGGTGCTGTAAATTTTGCTCTGATGATGTCTCAAATGGAGGGGGGTTGCCCTGTTGACTATAACACAATAACCGATCTCTTTCTTCAG
Basic information
species | Glycine max |
transcript | GLYMA14G37510.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 14
------tattgtttatgatgcttacctagttacctttatacaatatctaatatcttgccagtt--tactcttttttt----atttgtttattta--gaactcgttttattgcagGGTGCTGTAAATTTTGCTCTGATGATGTCTCAAATGGAGGGGGGTTGCCCTGTTGACTATAACACAATAACCGATCTCTTTCTTCAG
||||| ||| | | || | || | | | | | | | | || ||| | | ||| ||| | || ||||||| | | | || | ||||| ||||| || ||||| || |||||||| |||||||||||||| || || ||||| || || || ||||| |||||||| ||||||
gtaatgtattggttaagctattt--tgggctagggtgaaatactctgctttgttctgtgggttgttgatttttatttgcaaaattaattatttactgtatatctcttttaccagGGAGCTGTCAACTTTGCGCTCATGATGTCACAAATGGAGGGGGGCTGTCCAGTTGATTACAATACTATAACTGATCTCTTCCTTCAG
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 14
------tattgtttatgatgctt---acctagtt--acctttatacaatatctaatatcttgccagtttactctttttttatttgtttattta--gaactcgttttattgcagGGTGCTGTAAATTTTGCTCTGATGATGTCTCAAATGGAGGGGGGTTGCCCTGTTGACTATAACACAATAACCGATCTCTTTCTTCAG
||||| ||| | | || | | | | || | | | | | ||| ||| || |||| || ||||| | | | || | ||||| ||||| || ||||| || |||||||| |||||||||||||| || || ||||| || || || ||||| |||||||| ||||||
gtaatttattggttaagctattttgtgctagggtgaaatattctgctttgttctgtgggttgttgatttttatttgcaaaatttatt-atttactgtatatctcttttaccagGGAGCTGTCAACTTTGCGCTCATGATGTCACAAATGGAGGGGGGCTGTCCAGTTGATTACAATACTATAACTGATCTCTTCCTTCAG
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 12
--tattgtttatgat--gcttacctag--ttacctttatacaatatctaatatcttgccagtttactcttttt------ttatttgtttatttagaactcgttttattgc-agGGTGCTGTAAATTTTGCTCTGATGATGTCTCAAATGGAGGGGGGTTGCCCTGTTGACTATAACACAATAACCGATCTCTTTCTTCAG
|||| |||| | || || | | ||| | | | | | | | | | |||| | | | | | || || ||| || | || | | | |||| ||||| || ||||| |||||||||| ||||||||||| ||||| || || ||||| ||||| || || |||||||| ||||||
gtaattggttattttaagcaaacttgggcttaatgtgaggtattcatttgtttggtacatgtttcttttatctcagaaatccttgcttcattgtcaatttgtatcttgaccagGGAGCTGTCAACTTTGCATTGATGATGTCACAAATGGAGGGAGGTTGTCCAGTAGACTACAACACTATCACTGATCTCTTCCTTCAG
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 14
--tattgtttatgatgcttacctagttacctttatacaatatctaatatcttgccagtttactctttttttatttgtttatttagaactcgttttattgcagGGTGCTGTAAATTTTGCTCTGATGATGTCTCAAATGGAGGGGGGTTGCCCTGTTGACTATAACACAATAACCGATCTCTTTCTTCAG
|||| || | | | | || || || | | | | || | | | | | | | ||| | | | || || |||||| || || ||||||||| | ||||||||||||||||| || |||||||| ||||| || ||||||||||| ||||| || ||||||
tggattgcttgtc-tcttctcatacactccattcttctgaagttggactccagttgaaatcacttgctgatggaggataattcaca-ttttttggatggcagGGGGCAGTTAATTTTGCTTTAATGATGTCTCAAATGGAAGGAGGTTGCCCAGTTGATTACAACACAATAACAGATCTATTCCTTCAG
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 12
lower sequence: PP1S452_30V6.1 (Physcomitrella patens), 3'ss of exon 15
---------tattgtttatgatgcttacctagt--tacctttatacaatat--ctaatatcttgccagtttactctttttttatttgtttatttag--aactcgttttat---tgcagGGTGCTGTAAATTTTGCTCTGATGATGTCTCAAATGGAGGGGGGTTGCCCTGTTGACTATAACACAATAACCGATCTCTTTCTTCAG
|| |||| || || || || | | ||| || ||| | | | | | || | || | | || | ||| || | | |||||||||||||||| |||||||||||||||||||| |||| | || || || || |||||||| || || || | || ||||||
gtacttctaaatgacatatgctgtttctttaaaaataacccaaggttgtatttctgataatctacaatctgttttttatcttcagtactaatgtcattgtctcattatgtgcatgcagGGTGCTGTAAACTTTGCTCTGATGATGTCTCAGTTGGAAAGAGGATGTCCAGTAGACTATAATGTTATCACTGACTTGTTCCTTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcttgccagtttactctttttttatttgtttatttagaactcgttttattgcagGGTGCTGTAAATTTTGCTCTGATGATGTCTCAAATGGAGGGGGGTTGCCCTGTTGACTATAACACAATAACCGATCTCTTTCTTCAG
ctcgtttt CT-rich tract
tttttttatttgttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattgtttatgatgcttacctagttacctttatacaatatctaatatcttgccagtttactctttttttatttgtttatttagaactcgttttattgcagGGTGCTGTAAATTTTGCTCTGATGATGTCTCAAATGGAGGGGGGTTGCCCTGTTGACTATAACACAATAACCGATCTCTTTCTTCAG
- - - - - - -gcttacc
- - - - - - - - - - - - - - - - - - - - - - - -cttgcca