Sequence
atgc intronic sequence ATGC exonic sequence...aaatgctcccaagcacacacgtagactgtagaaatgttaaattgttcattgaatttatattttgtccatatttagagtgtgttttttttttctttggcagGCACTTAGACAATCTCCTCCTTAGAAATGACGGAGGTCTTTTCCATGTTGATTTTGGTTTTATTCTTGGGCGAGATCCTAAGCCATTTCCACCACCAATG
Basic information
species | Glycine max |
transcript | GLYMA06G10090.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G10090.1 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G103721_T01 (Zea mays), 3'ss of exon 14
-aaatgctcccaagcacacacgtagactgtaga-aatgttaaattgttcattgaatttatattttgtccatatttagagtgtgttttttttttctttggcagGCACTTAGACAATCTCCTCCTTAGAAATGACGGAGGTCTTTTCCATGTTGATTTTGGTTTTATTCTTGGGCGAGATCCTAAGCCATTTCCACCACCAATG
|| | || || || || || | |||| || | | || ||| | | ||| | | | | | | | ||| | | | ||||| | || ||||| || || | |||| ||| | ||||| |||||||| |||| |||||| ||||||||||| || ||||||||||| ||||| |||
ttgatagatgaatttacccatgttgaacatatacaatgatacaacat--atagaaatgcaaatttaacagtgataacattttcccctttctctactctctagGCATCTGGATAATCTTCTTCTAACTGATGATGGACGCCTTTTTCATGTTGACTTTGCTTTTATCCTTGGGCGAGACCCAAAGCCATTTCCGCCACCGATG
upper sequence: GLYMA06G10090.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv01s0127g00430.t01 (Vitis vinifera), 3'ss of exon 14
--------------------------------------aaatgctcccaagcacacacgtagactg--tagaaatgttaaattgttcattgaatt------tatattt---tgtccatatttagagtgtgttttt------------tttttctttggcagGCACTTAGACAATCTCCTCCTTAGAAATGACGGAGGTCTTTTCCATGTTGATTTTGGTTTTATTCTTGGGCGAGATCCTAAGCCATTTCCACCACCAATG
| || | | | | | || | | ||| | || |||| | |||| | || || | | | | | ||| | ||| | || || | | |||||| ||||||| || |||||||| |||| || |||| ||||||||||||||||| |||||| | || ||||||||||||||||||||||||||||||
gtgactattgaatttgacaatgtacatcaagactatctacatattactgtac-cttatttaaattagctagtgttttttaattttctgttgattcctggggtagatctgaatatgtcaaactgaagtatatttctgaatacaaaatcttcttggcttgtagGCACCTAGACAACCTTCTCCTTAGGGATGATGGGCGTCTGTTCCATGTTGATTTTGGATTTATTTTAGGCCGAGATCCTAAGCCATTTCCACCACCAATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcattgaatttatattttgtccatatttagagtgtgttttttttttctttggcagGCACTTAGACAATCTCCTCCTTAGAAATGACGGAGGTCTTTTCCATGTTGATTTTGGTTTTATTCTTGGGCGAGATCCTAAGCCATTTCCACCACCAATG
tgtgttttttttttct CT-rich tract
aatttatattttgtcc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaatgctcccaagcacacacgtagactgtagaaatgttaaattgttcattgaatttatattttgtccatatttagagtgtgttttttttttctttggcagGCACTTAGACAATCTCCTCCTTAGAAATGACGGAGGTCTTTTCCATGTTGATTTTGGTTTTATTCTTGGGCGAGATCCTAAGCCATTTCCACCACCAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - -ctcccaa
- - - - - - -cacacac
- - - - - - - - - - - -gactgta