Sequence
atgc intronic sequence ATGC exonic sequencegtgcggtctgtcaattctagaagttgattttcatatgattgtgattatgatatatgtaatgaggttctttttgttcattgagttatgcagATGTCAGCTGAAGATTTCATAAAAAATAATCGTGGCATAGATGATGGAAAAGATGTACCAGAGGAATACTTAAGGTCTTTGTATGAACGAATATCTAGAA
Basic information
species | Glycine max |
transcript | GLYMA09G40480.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G40480.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G058870_T01 (Zea mays), 3'ss of exon 4
gtgcggtctgtcaattctagaagttgattttcatatgattgtgattatgatatatgtaatgaggttctttttgttcattgagttatgcagATGTCAGCTGAAGATTTCATAAAAAATAATCGTGGCATAGATGATGGAAAAGATGTACCAGAGGAATACTTAAGGTCTTTGTATGAACGAATATCTAGAA
|| |||| | || | ||| | || | || || | || ||| | || | ||| | || ||||||||||| | ||||||||||| | ||| |||||||| || |||||||| || || |||| || |||| | || || ||||||||| | || | | ||
---------gtactttcttgtggtgaaggttcttttg--cggagttctggtttacacaattatgtaacat--gttactcga----tgcagATGTCACCAGAAGATTTCATTAGAAACAATCGTGGTATCGATGATGGGAAGGACCTACCTGAAGAATTTATGAGATCATTGTATGAAAGGATTTGGAAAA
upper sequence: GLYMA09G40480.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 4
------------gtgcggtctgtcaattctagaagttgattttcatatgattgtgattatgatatatgtaatgaggttctttttgttcattgagttatgcagATGTCAGCTGAAGATTTCATAAAAAATAATCGTGGCATAGATGATGGAAAAGATGTACCAGAGGAATACTTAAGGTCTTTGTATGAACGAATATCTAGAA
| | || | ||| ||| | | ||||| | ||| | | | | | | || | || |||||| ||||| | |||||||||||| |||| ||||| |||| ||| ||||||||||||||||| ||||||||| |||| ||||| || | || || ||||||||||| ||||| ||||
gtatactcaaaaatttaatttgaagttatgagatgtttaatatcataacttgctgaat-ttctgtttattattaatttttttttggtcattaaaatatgcagATGTCGCCTGATGATTTTATAAGAAACAATCGTGGCATAGATGACGGAAAAGATTTACCTGAGGACTATATGAGATCATTGTATGAACGGATATCAAGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgattgtgattatgatatatgtaatgaggttctttttgttcattgagttatgcagATGTCAGCTGAAGATTTCATAAAAAATAATCGTGGCATAGATGATGGAAAAGATGTACCAGAGGAATACTTAAGGTCTTTGTATGAACGAATATCTAGAA
attatgatatatgtaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgcggtctgtcaattctagaagttgattttcatatgattgtgattatgatatatgtaatgaggttctttttgttcattgagttatgcagATGTCAGCTGAAGATTTCATAAAAAATAATCGTGGCATAGATGATGGAAAAGATGTACCAGAGGAATACTTAAGGTCTTTGTATGAACGAATATCTAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA