Sequence
atgc intronic sequence ATGC exonic sequenceTGCGGCATTTGTCTGCTAAGTATTGTCCTTTGGTGCCTCCTCCAAGGTCTACTATTGCAGCAGCATTTAGCCCAGATGGGAAAGTTCTTGCCTCCACACAgtaagttttaactagttgatctcctctttactaatttgaatctatgaacttttgtgattgaatcttgttatgtgttatgtgcag
Basic information
species | Glycine max |
transcript | GLYMA19G35370.3 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G35370.3 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os02g18820.1 (Oryza sativa), 5'ss of exon 4
TGCGGCATTTGTCTGCTAAGTATTGTCCTTTGGTGCCTCCTCCAAGGTCTACTATTGCAGCAGCATTTAGCCCAGATGGGAAAGTTCTTGCCTCCACACAgtaagttttaactagttgatctcctctttactaatttgaatctatgaacttttgtgattgaatcttgttatgtgttatgtgcag
||| || | |||||| || ||||||||| | |||| || || ||||||||||| ||||| ||||| ||||||||||||||| ||||| || ||||||||||||| | || ||| | || ||| | | ||| |||| || | | || || ||||
TGCATCACTGGTCTGCCAAATATTGTCCTCTTTTGCCACCCCCCAGGTCTACTATCGCAGCTGCATTCAGCCCAGATGGGAAAACACTTGCATCTACACAgtaagttt--attatttg---cggaatataaggattaaagt----gaaggcatgtggactaactccatc---tcttttgagcag
upper sequence: GLYMA19G35370.3 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G007229_T01 (Zea mays), 5'ss of exon 3
TGCGGCATTTGTCTGCTAAGTATTGTCCTTTGGTGCCTCCTCCAAGGTCTACTATTGCAGCAGCATTTAGCCCAGATGGGAAAGTTCTTGCCTCCACACAgtaagttttaactagttgatctcctctttactaatttgaatctatgaacttttgtgattgaatcttgttatgtgttatgtgcag
||| | |||||| |||||||| ||| | |||| ||||| ||||| ||||||||||| || || || |||||||| ||| ||||| |||||||||||||||| |||| || | || || |||| | || | ||| | | || | ||| || | |
TGCATAGCTGGTCTGCCAAGTATTGCCCTCTTTTGCCACCTCCTAGGTCAACTATTGCAGCTGCTTTCAGTCCAGATGGAAAAACACTTGCGTCCACACAgtaagttt------attgactcactgtataacaaactgaactgaaagacatcc-tgactaa--ctcaatctgttttctcag---
upper sequence: GLYMA19G35370.3 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G353548_T04 (Zea mays), 5'ss of exon 3
TGCGGCATTTGTCTGCTAAGTATTGTCCTTTGGTGCCTCCTCCAAGGTCTACTATTGCAGCAGCATTTAGCCCAGATGGGAAAGTTCTTGCCTCCACACAgtaagttttaactagttgatctcctctttactaatttgaatctatgaacttttgtgattgaatcttgttatgtgttatgtgcag
||| | | |||||| |||||||| ||| | |||| ||||| ||||| ||||||||||| || || || |||||||| ||| ||||| |||||||||||||||| ||||| || | || || |||| | || | | | || | ||| || | |
TGCATCGCTGGTCTGCCAAGTATTGCCCTCTTTTGCCACCTCCTAGGTCAACTATTGCAGCTGCTTTCAGTCCAGATGGAAAATCACTTGCGTCCACACAgtaagttt------attgattcactgtataacaaactgaaatgaaagacacgc-caactaa--ctcaatctgttttctcag---
upper sequence: GLYMA19G35370.3 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G167886_T03 (Zea mays), 5'ss of exon 4
TGCGGCATTTGTCTGCTAAGTATTGTCCTTTGGTGCCTCCTCCAAGGTCTACTATTGCAGCAGCATTTAGCCCAGATGGGAAAGTTCTTGCCTCCACACAgtaagtt--ttaactagttgatctcctctttactaatttgaatctatgaacttttgtgattgaatcttgttatgtgttatgtgcag
| | | | || ||||| ||| | |||| || | | | | ||||||||||| |||||||| ||||||||| ||| ||||| || |||||||| ||| |||||| | ||| | | ||| | | | | | |||| | || | | |||| | |||| |||
----TTGGTGGATTCCCAAATATTGCCCTCTCACGCCTTCTTCGAAGGCAACTATTGCAGCTGCATTTAGTACAGATGGGAGAGTACTTGCATCTACACAGTAGgttaattaacttgctgaatgtatggtctataaat---accaaaggacttata-gactaa--cttg----gctttatccccag
upper sequence: GLYMA19G35370.3 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G167886_T02 (Zea mays), 5'ss of exon 4
TGCGGCATTTGTCTGCTAAGTATTGTCCTTTGGTGCCTCCTCCAAGGTCTACTATTGCAGCAGCATTTAGCCCAGATGGGAAAGTTCTTGCCTCCACACAgtaagtt--ttaactagttgatctcctctttactaatttgaatctatgaacttttgtgattgaatcttgttatgtgttatgtgcag
||| | | | | || ||||| ||| | |||| || | | | | ||||||||||| |||||||| ||||||||| ||| ||||| || |||||||| ||| |||||| | ||| | | ||| | | | | | |||| | || | | |||| | |||| |||
TGCATTGGTGGATTCCCAAATATTGCCCTCTCACGCCTTCTTCGAAGGCAACTATTGCAGCTGCATTTAGTACAGATGGGAGAGTACTTGCATCTACACAgtaggttaattaacttgctgaatgtatggtctataaat---accaaaggacttata-gactaa--cttg----gctttatccccag
upper sequence: GLYMA19G35370.3 (Glycine max), 5'ss of exon 3
lower sequence: AT1G04140.2 (Arabidopsis thaliana), 5'ss of exon 3
TGCGGCATTTGTCTGCTAAGTATTGTCCTTTGGTGCCTCCTCCAAGGTCTACTATTGCAGCAGCATTTAGCCCAGATGGGAAAGTTCTTGCCTCCACACAgtaagttttaactagttgatctcctctttactaatttgaatctatgaact-tttgtgattgaatcttgttatgtgttatg-----tgcag
||| |||||| |||||||| || |||||| | || |||||||||||||| || ||||||||||| ||||| ||||||| | | |||||| || ||||||||||| | | ||| | || | || |||| | | | |||| | ||| | || || ||| || | || ||
TGCAGCATTTATCTGCTAAATACTGTCCTCTTGTACCTCCTCCAAGGTCAACGATTGCAGCAGCTTTTAGTTCAGATGGAAGAACTCTTGCTTCTACACAgtaagtatca-tgagtcg----------tatttgttggaattttttttttgtttgctaatgagtttttttttgtatttttaatcttgtag
upper sequence: GLYMA19G35370.3 (Glycine max), 5'ss of exon 3
lower sequence: Vv07s0005g04630.t01 (Vitis vinifera), 5'ss of exon 3
TGCGGCATTTGTCTGCTAAGTATTGTCCTTTGGTGCCTCCTCCAAGGTCTACTATTGCAGCAGCATTTAGCCCAGATGGGAAAGTTCTTGCCTCCACACAgtaagttttaactagt---tgatctcctctttactaatttgaatctatgaacttttgtgattgaatcttgttatgt-gttatgtgcag--------------------------------
||| |||||| || || | |||||||||| || |||||||||| ||||||||||||||||||||||| || |||||||| ||| ||||| |||||||||||| |||||||| || | | | || || ||| ||| || | || || | | || | |||||| | | |
TGCAGCATTTATCAGCCAGGTATTGTCCTCTGATGCCTCCTCCGAGGTCTACTATTGCAGCAGCATTCAGTCCAGATGGAAAAACACTTGCTTCCACACAgtaaattttaacttgtcttttcttttcttttctctattttacatttttgcaccgtcttttttatccgtaattatgtagccaggcttctaactgtactccaatcctatttcatactcacagMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|193597700|gb|FK552774.1|FK552774EST: ACTATTGCAGCAGCATTTAGCCCAGATGGGAAAGTTCTTGCCTCCACACA TGGTGACCACACAGTAAAGATAATTGATTGTGAAACTGGAAGTTGCTTAAA
genomic: ACTATTGCAGCAGCATTTAGCCCAGATGGGAAAGTTCTTGCCTCCACACAgtaagtttta ... ttatgtgcagTGGTGACCACACAGTAAAGATAATTGATTGTGAAACTGGAAGTTGCTTAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCGGCATTTGTCTGCTAAGTATTGTCCTTTGGTGCCTCCTCCAAGGTCTACTATTGCAGCAGCATTTAGCCCAGATGGGAAAGTTCTTGCCTCCACACAgtaagttttaactagttgatctcctctttactaatttgaatctatgaacttttgtgattgaatcttgttatgtgttatgtgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG