Sequence
atgc intronic sequence ATGC exonic sequencegtacgtgaaattcttcaacacattcattaggcatgtacaagatagctactaatgatactacttaactgattttaatttccctgccgcagGCATGTTTTTGCCACTTTGTCATTCATTGCTGAAATCTTTATCTTCCTCTATGTGGGGATGGATGCATTAGATATAGAAAAGTGGCGAATTGTAAGTCAA
Basic information
species | Glycine max |
transcript | GLYMA07G38160.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G38160.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os07g47100.2 (Oryza sativa), 3'ss of exon 9
--------------gtacgtgaaattcttcaacacattcattaggc---atgtacaagatagctactaatgatactacttaactgattttaatttccctgccgcagGCATGTTTTTGCCACTTTGTCATTCATTGCTGAAATCTTTATCTTCCTCTATGTGGGGATGGATGCATTAGATATAGAAAAGTGGCGAATTGTAAGTCAA
| | ||||| | | | ||||| | | | | ||| || | ||| | | |||| | | || |||||| | ||||| ||| |||| ||||||||||| | ||| ||||||| ||||| |||||||||||||| ||||| ||||| ||| ||| ||| |
gtaaattataattctcattccatattctactgtttaatgattagcttcagttcgtagaaaaacta--aacaaaacttactggtttgttttgtcctttc-acctcagGCACGCATTTGCAACTCTGTCCTTCATTGCTGAGACTTTTCTCTTCCTGTATGTTGGGATGGATGCATTGGATATTGAAAAATGGGAGTTTGCCAGTGAC
upper sequence: GLYMA07G38160.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os05g05590.1 (Oryza sativa), 3'ss of exon 10
---------gtacgtgaaattcttcaac--acattcatta-ggcatgtacaagat--agctactaatg-atactacttaactgattttaatt-tccctgccgcagGCATGTTTTTGCCACTTTGTCATTCATTGCTGAAATCTTTATCTTCCTCTATGTGGGGATGGATGCATTAGATATAGAAAAGTGGCGAATTGTAAGTCAA
|| | || || || || | || || | | |||| | || | ||| ||| ||| ||||| || | | | | |||||| |||||| ||||| || |||||||||||||| ||| | || |||||||| |||||||||||| | || || ||||| ||| | | | ||
gtatgtactgtctgataatcagttttactggcaacccttgtggtttcttttagatgaaaatatttatgtatatggcttc-ctgatattcttcattcattttacagGCACACTTTTGCTACTTTATCTTTCATTGCTGAAATTTTTCTATTTCTCTATGTTGGGATGGATGCACTGGACATTGAAAAATGGAAATTAGCTAGCAGC
upper sequence: GLYMA07G38160.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G063492_T01 (Zea mays), 3'ss of exon 10
-----------gtacgtgaaattcttcaacacattcatta-ggcatgtacaagatagctactaatgatactacttaactgattttaatttccctgccgcagGCATGTTTTTGCCACTTTGTCATTCATTGCTGAAATCTTTATCTTCCTCTATGTGGGGATGGATGCATTAGATATAGAAAAGTGGCGAATTGTAAGTCAA
| | | || ||| | || |||| || ||| || | || |||||| || ||| ||||| || |||||||| |||||| ||||| ||||||||||| ||||| || | ||||||||||| |||||||||||||| || || || |||||| | | | |||
gtatgtcttttctggattcagtttttcta-gcaaaaattatggttcttacttctta--cattatgtatactaattgctgattttctctttccatgttgcagGCATACTTTTGCAACTTTATCATTCATTGCAGAAATTTTCCTTTTCCTCTATGTTGGGATGGATGCATTGGACATTGAGAAGTGGAAATTAGCTAGTAGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtacaagatagctactaatgatactacttaactgattttaatttccctgccgcagGCATGTTTTTGCCACTTTGTCATTCATTGCTGAAATCTTTATCTTCCTCTATGTGGGGATGGATGCATTAGATATAGAAAAGTGGCGAATTGTAAGTCAA
tttccctgcc CT-rich tract
ttaactgattttaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgtgaaattcttcaacacattcattaggcatgtacaagatagctactaatgatactacttaactgattttaatttccctgccgcagGCATGTTTTTGCCACTTTGTCATTCATTGCTGAAATCTTTATCTTCCTCTATGTGGGGATGGATGCATTAGATATAGAAAAGTGGCGAATTGTAAGTCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA