Sequence
atgc intronic sequence ATGC exonic sequence...tgagattttttctgtaatttcttggaactgccttttgcttcttgaccaaaggtttatttggttgaagacttgaactattcccatcttcttttatccacagACTAGTTATTGACAGAGAAACTGGGAAACCAAAAGGTTATGGATTCTGTGAGTATAAGGATGAAGAGACGGCTTTAAGTGCTCGACGAAATCTTCAGGGT
Basic information
species | Glycine max |
transcript | GLYMA10G36350.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G36350.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G096480_T03 (Zea mays), 3'ss of exon 2
tgagattttttctgtaatttcttggaactgccttttgcttcttgaccaaaggtttatttggttgaagacttgaact--attcccatcttctt----ttatccacagACTAGTTATTGACAGAGAAACTGGGAAACCAAAAGGTTATGGATTCTGTGAGTATAAGGATGAAGAGACGGCTTTAAGTGCTCGACGAAATCTTCAGGGT
|| | | | | | || | | || | | | |||| | | | | |||| | | | || || || ||| | || ||||||| ||| || || || |||||||||||||| || || ||||| |||||||| || || ||||||||||| || || || |||||||||
------ttctggtttggtaacactgattaacatgtttactactactgttaagtttttcagcatttgaatttgattttggtaactgactgctacaaattgcttgtagATTGGTGATTGACAAAGAGACCGGCAAGCCAAAAGGTTATGGCTTTTGCGAGTACAAGGATGAGGAAACTGCTTTAAGTGCACGCCGGAACCTTCAGGGT
upper sequence: GLYMA10G36350.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G174919_T03 (Zea mays), 3'ss of exon 1
tgagattttttctgtaatttcttggaactgccttttgcttcttgaccaaaggtttatttggttgaagacttgaactattcccatcttctt-ttatccacagACTAGTTATTGACAGAGAAACTGGGAAACCAAAAGGTTATGGATTCTGTGAGTATAAGGATGAAGAGACGGCTTTAAGTGCTCGACGAAATCTTCAGGGT
| | || ||| || || | ||| || | |||| ||| |||| | | || | | | | || | || ||| | || ||||||| ||| ||||| || |||||||||||||| || || ||||| ||||| || || || ||| ||||||| || || || |||||||||
taacatgtttgctacggttatgtttttgcaacttgtgaat-ttgattaaaatgctattgagctatgctttttggcaactgactgctacaaattgcttgcagGTTGGTGATTGACAAAGAGACTGGCAAGCCAAAAGGTTATGGCTTTTGCGAGTACAAGGACGAGGAAACTGCTCTAAGTGCACGGCGGAACCTTCAGGGT
upper sequence: GLYMA10G36350.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G71800.1 (Arabidopsis thaliana), 3'ss of exon 2
-tgagattttttctgtaatttcttggaactgccttttgcttcttgaccaaaggtttatttggttgaagacttgaactattccca----tcttcttttatcca---cagACTAGTTATTGACAGAGAAACTGGGAAACCAAAAGGTTATGGATTCTGTGAGTATAAGGATGAAGAGACGGCTTTAAGTGCTCGACGAAATCTTCAGGGT
| || ||| | | |||| || | ||||| | || | || | | || | | | | || ||||| |||| |||||| || ||||||||||| ||||||||||| || ||||| ||||||||||| || ||||| || || ||||||||||| || ||||||||| ||
gtcagttttatcgttcaatt--atgatttagggttttgataaaggaaacacttttcttcaaacaaacgaaacacagaagcctaaaaaactttgctttattggattcagATTAGTTACGGATAGAGAAACTGGTAAACCAAAAGGCTACGGATTTTGTGAGTATAAAGACGAAGAAACAGCATTAAGTGCTCGTCGTAATCTTCAGAGT
upper sequence: GLYMA10G36350.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv18s0001g01800.t01 (Vitis vinifera), 3'ss of exon 2
--tgagattttttctgtaatttcttggaactgccttttgcttcttgaccaaaggtttatttggttgaagacttgaactattcccatcttcttttatccacagACTAGTTATTGACAGAGAAACTGGGAAACCAAAAGGTTATGGATTCTGTGAGTATAAGGATGAAGAGACGGCTTTAAGTGCTCGACGAAATCTTCAGGGT
||| |||| ||||| | | | ||| | | | | ||||| || ||| | |||| | || ||| | |||| | |||||||| ||||||| ||||| ||||||||||||||||||||||||||||||||||||||||| || ||||||||||| || |||||||||||
aatgaacgttttctccacatttccctcactttcttttagtaacagcaatttgtttctatttccttttt--ctttatttatttatttatttattttgcttcagATTGGTTATTGATCGAGAAACAGGGAAGCCAAAAGGTTATGGATTCTGTGAGTATAAGGATGAAGAGACAGCATTAAGTGCTCGTCGTAATCTTCAGGGCMapped 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|26048833|gb|CA785286.1|CA785286EST: GAACAGCTTATTGAAATCTGCCAGGAGGTTGGCCCAGTAGTCTCATTCAG ACTAGTTATTGACAGAGAAACTGGGAAACCATAAGGTTATGGATTCTGTGA
genomic: GAACAGCTTATTGAAATCTGCCAGGAGGTTGGCCCAGTAGTCTCATTCAGgtaactttga ... ttatccacagACTAGTTATTGACAGAGAAACTGGGAAACCAAAAGGTTATGGATTCTGTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccaaaggtttatttggttgaagacttgaactattcccatcttcttttatccacagACTAGTTATTGACAGAGAAACTGGGAAACCAAAAGGTTATGGATTCTGTGAGTATAAGGATGAAGAGACGGCTTTAAGTGCTCGACGAAATCTTCAGGGT
ctattcccatcttctt CT-rich tract
ttcttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgagattttttctgtaatttcttggaactgccttttgcttcttgaccaaaggtttatttggttgaagacttgaactattcccatcttcttttatccacagACTAGTTATTGACAGAGAAACTGGGAAACCAAAAGGTTATGGATTCTGTGAGTATAAGGATGAAGAGACGGCTTTAAGTGCTCGACGAAATCTTCAGGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - -ttctgta
- - - - - - - - - - - - - -ctgcctt
- - - - - - - - - - - - - - - - - -tgcttct