Sequence
atgc intronic sequence ATGC exonic sequence...tttcaggaaaactaatttatgccatataaaactgctgtttagaaaaattattatctttggtcatgagtcttgagatattcaattattgttgttgttgtagAGAGCTGTGCTAGAACCTGCGATGCAAGGACGTGATATGATAGGTCGAGCTAGAACAGGAACTGGGAAAACTCTTGCTTTTGGGATACCCATCTTGGACA
Basic information
species | Glycine max |
transcript | GLYMA18G14670.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G14670.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G22330.1 (Arabidopsis thaliana), 3'ss of exon 1
--------tttcaggaaaactaatttatgccatataaaactgctgtttagaaaaattattatctttggtcatgagtcttgagatattcaattattgttgttgtt-gtagAGAGCTGTGCTAGAACCTGCGATGCAAGGACGTGATATGATAGGTCGAGCTAGAACAGGAACTGGGAAAACTCTTGCTTTTGGGATACCCATCTTGGACA
| | || | | || || | | | | || ||| | || | ||||| | | | || || | |||| ||| | ||||| ||||||||| || || |||||| | || || |||||||| ||||| ||||| || ||||| || || || |||||||||||||| || ||| | ||||
gtatgtaatgttgtgagatcaaaattttaaattgttcagct----tttcgtgttcccat-gtttttggaagaagggtaagtgggttttaagttttgtggttttgagtagAAAGCTGTGCTGGAGCCAGCGATGGAGGGTCGAGATATGATTGGTCGTGCTAGGACTGGAACGGGAAAGACACTTGCTTTTGGGATTCCTATCATTGACA
upper sequence: GLYMA18G14670.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv12s0142g00670.t01 (Vitis vinifera), 3'ss of exon 1
---tttcaggaaaactaatttatgccatataaaactgctgtttagaaaaattattatctttggtcatgagtcttgagatattcaattattgttgttgttgtagAGAGCTGTGCTAGAACCTGCGATGCAAGGACGTGATATGATAGGTCGAGCTAGAACAGGAACTGGGAAAACTCTTGCTTTTGGGATACCCATCTTGGACA
| | | | |||||| | | | | | || | | | | | | | | | | | |||| ||| | | ||||||||||||| |||||||| |||||||| ||||| ||||| ||||| ||||||||||| ||||||||||| |||||||||||||| |||||| |||| |
tcatgttaattgttcacatttatttcttgatatgtcagtaactc-aatattcggttttggagattccatttttcgtaaaaaaaaatt--tgtacattgtacagAGAGCTGTGCTGGAACCTGCAATGCAAGGGCGTGACATGATCGGTCGTGCTAGAACAGGGACTGGGAAAACCCTTGCTTTTGGGATTCCCATCATGGATAMapped 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|16997246|gb|BM086618.1|BM086618EST: TCGTGGATGCTCTGGCCAGGAAAGGGATCGCGAAGCTCTTTCCCATTCAG AGAGCTGTGCTAGAACCTGCGATGCAAGGACGTGATATGATAGGTCGAGCT
genomic: TCGTGGATGCTCTGGCCAGGAAAGGGATCGCGAAGCTCTTTCCCATTCAGgtaacgtcta ... gttgttgtagAGAGCTGTGCTAGAACCTGCGATGCAAGGACGTGATATGATAGGTCGAGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattattatctttggtcatgagtcttgagatattcaattattgttgttgttgtagAGAGCTGTGCTAGAACCTGCGATGCAAGGACGTGATATGATAGGTCGAGCTAGAACAGGAACTGGGAAAACTCTTGCTTTTGGGATACCCATCTTGGACA
atattcaattattgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttcaggaaaactaatttatgccatataaaactgctgtttagaaaaattattatctttggtcatgagtcttgagatattcaattattgttgttgttgtagAGAGCTGTGCTAGAACCTGCGATGCAAGGACGTGATATGATAGGTCGAGCTAGAACAGGAACTGGGAAAACTCTTGCTTTTGGGATACCCATCTTGGACA
- - -ggaaaac
- - - - - - - - -tatgcca
- - - - - - - - - - - - - - - -ctgctgt
- - - - - - - - - - - - - - - - - - - - agaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgag