Sequence
atgc intronic sequence ATGC exonic sequencegtacgtgaaattcttcaacacattcatgagacatgtacaagattgctactaatgatactacttaactgattaatttccctgctgcagGCATGTTTTTGCCACTTTGTCATTCATTGCTGAAATCTTTATCTTCCTCTATGTGGGGATGGATGCATTAGATATAGAAAAGTGGCGAATTGTAAGTCAA
Basic information
species | Glycine max |
transcript | GLYMA17G02560.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G02560.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os07g47100.2 (Oryza sativa), 3'ss of exon 9
--------------gtacgtgaaattcttcaacacattcatgagacatgtacaagattgctactaatgata--ctacttaactgattaatttccctgctgcagGCATGTTTTTGCCACTTTGTCATTCATTGCTGAAATCTTTATCTTCCTCTATGTGGGGATGGATGCATTAGATATAGAAAAGTGGCGAATTGTAAGTCAA
| | ||||| | | | || || | ||||| | | |||| || || | | |||||| | ||||| ||| |||| ||||||||||| | ||| ||||||| ||||| |||||||||||||| ||||| ||||| ||| ||| ||| |
gtaaattataattctcattccatattctactgtttaatgattagcttcagttcgtagaaaaactaaacaaaacttactggtttgttttgtcctttcacctcagGCACGCATTTGCAACTCTGTCCTTCATTGCTGAGACTTTTCTCTTCCTGTATGTTGGGATGGATGCATTGGATATTGAAAAATGGGAGTTTGCCAGTGAC
upper sequence: GLYMA17G02560.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os05g05590.1 (Oryza sativa), 3'ss of exon 10
gtacgtgaaattcttcaa-cacattcatgagacatgtacaagattgctacta-atgatactacttaactgattaatttccc---------------tgctgcagGCATGTTTTTGCCACTTTGTCATTCATTGCTGAAATCTTTATCTTCCTCTATGTGGGGATGGATGCATTAGATATAGAAAAGTGGCGAATTGTAAGTCAA
||| || | || || || | | | | || || || |||| | || ||| | | |||| | | |||||| |||||| ||||| || |||||||||||||| ||| | || |||||||| |||||||||||| | || || ||||| ||| | | | ||
gtatgtactgtctgataatcagttttactggcaacccttgtggtttcttttagatgaaaatatttatgtatatggcttcctgatattcttcattcattttacagGCACACTTTTGCTACTTTATCTTTCATTGCTGAAATTTTTCTATTTCTCTATGTTGGGATGGATGCACTGGACATTGAAAAATGGAAATTAGCTAGCAGC
upper sequence: GLYMA17G02560.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G063492_T01 (Zea mays), 3'ss of exon 10
gtacgtgaaattcttcaacacattcatgagacatgtacaagattgctactaatgatactactta-actgattaat----------ttccctgctgcagGCATGTTTTTGCCACTTTGTCATTCATTGCTGAAATCTTTATCTTCCTCTATGTGGGGATGGATGCATTAGATATAGAAAAGTGGCGAATTGTAAGTCAA
||| || | || || || | | | || |||| | | | || || ||| ||| | |||| || ||||||||| |||||| ||||| ||||||||||| ||||| || | ||||||||||| |||||||||||||| || || || |||||| | | | |||
gtatgtcttttctggattcagtttttctagcaaaaattatggttcttacttcttacattatgtatactaattgctgattttctctttccatgttgcagGCATACTTTTGCAACTTTATCATTCATTGCAGAAATTTTCCTTTTCCTCTATGTTGGGATGGATGCATTGGACATTGAGAAGTGGAAATTAGCTAGTAGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtacaagattgctactaatgatactacttaactgattaatttccctgctgcagGCATGTTTTTGCCACTTTGTCATTCATTGCTGAAATCTTTATCTTCCTCTATGTGGGGATGGATGCATTAGATATAGAAAAGTGGCGAATTGTAAGTCAA
tttccctgct CT-rich tract
ttaactgattaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgtgaaattcttcaacacattcatgagacatgtacaagattgctactaatgatactacttaactgattaatttccctgctgcagGCATGTTTTTGCCACTTTGTCATTCATTGCTGAAATCTTTATCTTCCTCTATGTGGGGATGGATGCATTAGATATAGAAAAGTGGCGAATTGTAAGTCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA