Sequence
atgc intronic sequence ATGC exonic sequence...cctaaagttagatgcattttaattggtttttgtctgtaggtagtcgtagggaagatgattggacatgccccagctgtggtaatgttaatttctctttcagGACAACTTGTAACATGCGTAATTGCACTCAACCAAGGCCGGCTGATCATAATTCT
Basic information
species | Glycine max |
transcript | GLYMA18G00920.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G00920.2 (Glycine max), 3'ss of exon 2
lower sequence: AT1G67325.2 (Arabidopsis thaliana), 3'ss of exon 3
-------------------------------------------------------cctaaagttagatgcattttaattggttttt------gtctgtaggtagtcgtagggaagatgattggacatgccccagctgtggtaatgttaatttctctttcagGACAACTTGTAACATGCGTAATTGCACTCAACCAAGGCCGGCTGATCATAATTCT
| || | | | ||| || || || || |||| | ||||| ||||||||||||| ||||| || ||||| ||||| || || || |||||||||||||| || ||||||||||||||||| || || ||
ctatagtcagtttctttcagcgtatatgtttataaagggtttttgattttagactaccaatatgaatagttgtttggtttattcttttggtcgtggatagGGGGGCGTAGAGAAGATGATTGGATCTGCCCAAGTTGTGGCAATGTCAACTTTTCATTCAGGACAACTTGCAATATGCGTAATTGCACTCAGCCTAGACC----------------
upper sequence: GLYMA18G00920.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv01s0010g03700.t01 (Vitis vinifera), 3'ss of exon 2
-------------------------------------------------------------cctaaagttagatgcattttaattggtttttgtctgtaggtagtcgtagggaagatgattggacatgccccagctgtggtaatgttaatttctctttcagGACAACTTGTAACATGCGTAATTGCACTCAACCAAGGCCGGCTGATCATAATTCT
|| ||| | || ||| | || || |||||||| | || |||||||||||||| || || |||||||| ||||||||||| ||||| ||||| ||||| || ||||| ||||| || ||||| || ||
tgacatttggctgtccacatgtgattttacattcctttgttgcttattttctttgttatcatctcaagatgcccaatcattgatttatgcttatccgtagGTAGCAGGAGAGAAGATGATTGGACCTGTCCTAGCTGTGGCAATGTTAATTTTTCTTTTAGGACGACTTGCAATATGCGCAATTGTACCCAACCCAGACC----------------Mapped 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|16349090|gb|BI974685.1|BI974685EST: GTTGATAACAGAAATTCCTCAGCCACCAAGCGTGCTAGGACTGATG GACAACTTGTAACATGCGTAATTGCACTCAACCAAGGCCGGCTGATCATAA
genomic: GTTGATAACAGAAATTCCTCAGCCACCAAGCGTGCTAGGACTGATGgtgcgtcatg ... tctctttcagGACAACTTGTAACATGCGTAATTGCACTCAACCAAGGCCGGCTGATCATAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtagggaagatgattggacatgccccagctgtggtaatgttaatttctctttcagGACAACTTGTAACATGCGTAATTGCACTCAACCAAGGCCGGCTGATCATAATTCT
tgttaat putative branch site (score: 3)
ttaatttctctttc CT-rich tract
taatgttaatttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cctaaagttagatgcattttaattggtttttgtctgtaggtagtcgtagggaagatgattggacatgccccagctgtggtaatgttaatttctctttcagGACAACTTGTAACATGCGTAATTGCACTCAACCAAGGCCGGCTGATCATAATTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - tgcattt
- - - - - - - - - - - - - - -ttgtctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cagctgt