Sequence
atgc intronic sequence ATGC exonic sequencegtatattgacaaatacatgcattttctgtgtcttctctccatatttatgagcatctatggactgattacaatgacaaaaatttcagTTGTATAGTACTGTCACACTAAGGCAAGGGGAGAAGAAGCATTACAACCATAAAGTTGATGCTTATAGTTTTGCAATTGTGTTGTGGGAGCTCTTACACA
Basic information
species | Glycine max |
transcript | GLYMA04G36210.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G36210.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g38080.1 (Oryza sativa), 3'ss of exon 5
gtatattgacaaatacatgcattttctgtgtcttctctccatatttatgagcatctatggactgattacaatgacaaaaatttcagTTGTATAGTACTGTCACACTAAGGCAAGGGGAGAAGAAGCATTACAACCATAAAGTTGATGCTTATAGTTTTGCAATTGTGTTGTGGGAGCTCTTACACA
| | | | || | | ||| | | | | ||| | | || | | | ||| | | |||||||| || || || ||| | ||||| || || |||||||||||||| |||||||| || | |||||| |||||||||||||| ||||| ||| | ||||
--gtttctgttactgcagttcatatttgtcaatataattcttttttgtcaatatttgctaatc--ctgaaat----atatccacagTTGTACAGCACAGTGACATTGAGGCATGGAGAAAAGAAGCATTACAATCATAAAGTAGACGTTTATAGCTTTGCAATTGTGTTATGGGAACTCCTTCACA
upper sequence: GLYMA04G36210.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G165231_T01 (Zea mays), 3'ss of exon 4
gtatattgacaaatacatgcat-tttctgtgtcttctctccatatttatgagcatctatggactgattacaatgacaaaaatttcagTTGTATAGTACTGTCACACTAAGGCAAGGGGAGAAGAAGCATTACAACCATAAAGTTGATGCTTATAGTTTTGCAATTGTGTTGTGGGAGCTCTTACACA
| | | | ||| ||| ||| | | | ||| || || | | || | | | ||| |||||||| || || || ||||| ||||| || || ||||||||||||||||| ||||| |||| || || |||||||||||||||||||| ||| | ||||
-----gtttctactgcatccatatttttagtttctgagtccttaattttctgtattattaatgtaacctgggaattctaaa---cagTTGTACAGCACAGTAACACTGAGGCATGGAGAAAAGAAGCATTACAACCACAAAGTAGATGTCTACAGCTTTGCAATTGTGTTGTGGGAACTCCTCCACA
upper sequence: GLYMA04G36210.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G50180.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatattgacaaatacatgcattttctgtgtcttctctccatatttatgagcatctatggactgattacaatgacaaaaatttcagTTGTATAGTACTGTCACACTAAGGCAAGGGGAGAAGAAGCATTACAACCATAAAGTTGATGCTTATAGTTTTGCAATTGTGTTGTGGGAGCTCTTACACA
|| | | || | ||| || | |||| | | | | || ||| || || || ||| |||||||| || || || || || | || ||||||||||| ||||| |||||||| || || ||||| |||||||| || | |||||||| |||||||
gttcttctttacttatagacatatttgttcatttcttgtgcttctctttgctacttaaagac-aatcttggtg--gaatattacagTTGTACAGCACGGTAACTCTTCGATTGGGAGAGAAGAAGCACTACAATCATAAAGTCGACGCCTATAGCTTTGCAATAGTTCTTTGGGAGCTTTTACACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttctctccatatttatgagcatctatggactgattacaatgacaaaaatttcagTTGTATAGTACTGTCACACTAAGGCAAGGGGAGAAGAAGCATTACAACCATAAAGTTGATGCTTATAGTTTTGCAATTGTGTTGTGGGAGCTCTTACACA
gactgat putative branch site (score: 3)
aatgacaaaaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatattgacaaatacatgcattttctgtgtcttctctccatatttatgagcatctatggactgattacaatgacaaaaatttcagTTGTATAGTACTGTCACACTAAGGCAAGGGGAGAAGAAGCATTACAACCATAAAGTTGATGCTTATAGTTTTGCAATTGTGTTGTGGGAGCTCTTACACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT