Sequence
atgc intronic sequence ATGC exonic sequencegtgggtgaagctttgattatttctgttgcataatttgaaaattcacttgtgctgatctggaaataaaaaacaatggtgcagATTAAAATAGGTATGGATGTTGCAGCTTCAGAGTTTTACACTAAGGATGGGAAGTATGATTTGAACTTCAAGAAACAGCCAAATGATGGAGCTCATGTTC
Basic information
| species | Glycine max |
| transcript | GLYMA18G22780.1 |
| intron # | 4 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G22780.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os09g20820.1 (Oryza sativa), 3'ss of exon 3
gtgggtgaagctttgattatttctgttgcataatttgaaaat---tcacttgtgctgatctggaaa--taaaaaacaatgg-----------tgcagATTAAAATAGGTATGGATGTTGCAGCTTCAGAGTTTTACACTAAGGATGGGAAGTATGATTTGAACTTCAAGAAACAGCCAAATGATGGAGCTCATGTTC
| || || | | ||| | | || ||| || | ||| | | | | | | || || || || || ||||||||||||| || |||||||||||||| ||||||||| || |||||||| | ||||| || ||||| ||||| ||||| |||||||||||||||||||
--gtctgcagtcatcttgttttatttcccaccttttcaatgtggaccaccttttttttttttgtaacttataatactgtgaacccatcctactgcagATTAAAATTGGAATGGATGTTGCAGCATCAGAGTTTCTTACAAAGGATGGAAGCTATGACTTAAACTTTAAGAATCAGCCTAATGATGGAGCTCATGTTC
upper sequence: GLYMA18G22780.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G034848_T01 (Zea mays), 3'ss of exon 3
gtgggtgaagctttgattatttctgttgcata---atttgaaaattcacttgtgctgatctggaaataaaaaacaa----tggtgcagATTAAAATAGGTATGGATGTTGCAGCTTCAGAGTTTTACACTAAGGATGGGAAGTATGATTTGAACTTCAAGAAACAGCCAAATGATGGAGCTCATGTTC
||| | | | | | || || ||| | ||||| ||| |||| | || | ||| | ||||||| | ||||||| ||||| || ||||||||||| || |||||||| || ||||||||||| |||||| | ||||| ||||| ||||| |||||||||| |||||||
gtgtgatatcatctaactagtttcattggccacttgtttgattgttctcttgattttattttgaattttaaaacaaatcctaatgcagATCAAAATTGGAATGGATGTTGCGGCATCAGAGTTCCTTACAAAGGATGGGAACTATGATCTAAACTTTAAGAATCAGCCTAATGATGGAGTCCATGTTC
upper sequence: GLYMA18G22780.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G009030_T01 (Zea mays), 3'ss of exon 3
gtgggtgaagctttgattatttctgttgcata---atttgaaaattcacttgtgct--gatctggaaataaaaaacaa----tggtgcagATTAAAATAGGTATGGATGTTGCAGCTTCAGAGTTTTACACTAAGGATGGGAAGTATGATTTGAACTTCAAGAAACAGCCAAATGATGGAGCTCATGTTC
||| | | | | | || || ||| | ||||| || ||||| | | | | | ||| |||| | ||||||| ||||| |||||||||||||| || || ||||| || ||||||||||| |||||| | ||||| ||||| ||||| ||||||||||| ||| |||
gtgtgatatcatctaactagtttcattggccacttgtttgattgctctcttgttttttactttaaatgttaaacacaaatcctaatgcagATCAAAATTGGTATGGATGTTGCGGCATCTGAGTTCCTTACAAAGGATGGGAACTATGATCTAAACTTTAAGAATCAGCCTAATGATGGAGCCCATATTC
upper sequence: GLYMA18G22780.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G74030.1 (Arabidopsis thaliana), 3'ss of exon 3
---------------------------------gtgggtgaagctttg-attatttctgttgc-----ataatttgaaaattcacttgtgctgatctggaa--------ataaaaaacaatggt-gcagATTAAAATAGGTATGGATGTTGCAGCTTCAGAGTTTTACACTAAGGATGGGAAGTATGATTTGAACTTCAAGAAACAGCCAAATGATGGAGCTCATGTTC
| | | ||| | | || | |||| | | || || | ||| |||| | |||| | | ||| | |||||| |||||||| ||||||||||| || ||||| |||| || || ||||| | || |||||||||||||||||||||||||| ||||||||||| || |
gtaatcaagttctctttctttttaatgctaatacttgctaaagttgcatgtcatctgtgtttccctaaacaacttctggcagcttcggtgtcaatcttacaccactcacataatatataatttttgcagATCAAAATAGGAATGGATGTTGCTGCATCAGAATTTTTCATGAAAGATGGTAGATACGATTTGAACTTCAAGAAACAGCCAAACGATGGAGCTCACGTAC
upper sequence: GLYMA18G22780.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv17s0000g04540.t01 (Vitis vinifera), 3'ss of exon 3
gtgggtgaagctttgattat-ttctgttgcataatttgaaaattcacttgtgctgatctggaaataaaaaacaatggtgcagATTAAAATAGGTATGGATGTTGCAGCTTCAGAGTTTTACACTAAGGATGGGAAGTATGATTTGAACTTCAAGAAACAGCCAAATGATGGAGCTCATGTTC
|| || | ||| || | || | || | ||||| || |||| | | | | ||| |||| ||||||| |||||||| ||||||||||||||||||||||| | |||||| |||||||| ||||||||||| || |||||||| ||||||||||||||||| ||||
gtaggcgggttgttgcttttcttttcttttgcagtttgat--tttccttgcagcctttaaggactccaaataaatgatgcagATCAAAATAGGAATGGATGTTGCAGCTTCAGAGTTCTTCACTAAAGATGGGAAATATGATTTGAATTTTAAGAAACAACCAAATGATGGAGCTCACGTTCMapped 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|16105109|gb|BI892849.1|BI892849EST: GGCTTGTTTTACTCATGGATGCCATTGACAAGGCTGGTTATACTGGCAAG ATTAAAATAGGTATGGATGTTGCAGCTTCAGAGTTTTACACTAAGGATGGG
genomic: GGCTTGTTTTACTCATGGATGCCATTGACAAGGCTGGTTATACTGGCAAGgtgggtgaag ... aatggtgcagATTAAAATAGGTATGGATGTTGCAGCTTCAGAGTTTTACACTAAGGATGGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcataatttgaaaattcacttgtgctgatctggaaataaaaaacaatggtgcagATTAAAATAGGTATGGATGTTGCAGCTTCAGAGTTTTACACTAAGGATGGGAAGTATGATTTGAACTTCAAGAAACAGCCAAATGATGGAGCTCATGTTC
tgctgat putative branch site (score: 3)
aaataaaaaacaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgggtgaagctttgattatttctgttgcataatttgaaaattcacttgtgctgatctggaaataaaaaacaatggtgcagATTAAAATAGGTATGGATGTTGCAGCTTCAGAGTTTTACACTAAGGATGGGAAGTATGATTTGAACTTCAAGAAACAGCCAAATGATGGAGCTCATGTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
