Sequence
atgc intronic sequence ATGC exonic sequencegtgctttatatattattcttatctttgagatcatagactaaataatttatgtggactgtgtggtaactcctcttaatgggcagATTTCACCAACTGAAATTCGTGGTGCGCTAGGATCTGTTAATCAACTTTTTATATGCATTGGGATTCTTCTGGCACTGGTGGCTGGGCTGCCTCTGGCAG
Basic information
species | Glycine max |
transcript | GLYMA13G07780.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G07780.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os01g04190.2 (Oryza sativa), 3'ss of exon 6
---------------gtgctttatatattattcttatctttgag--atcatagactaaataatt---tatgtggactg--tgtggtaactcctctta-atgggcagATTTCACCAACTGAAATTCGTGGTGCGCTAGGATCTGTTAATCAACTTTTTATATGCATTGGGATTCTTCTGGCACTGGTGGCTGGGCTGCCTCTGGCAG
| | | || | || || || | | | ||| | || ||| | || | || | | ||| |||||||||||| |||||||| ||||| || || || ||||||||||| |||||||| |||||||| |||||| || ||||| ||||| | ||||||||||
gttgtgataactgataaattcaaattgttgaaatgattgttcagctactactggctaggttcttgaacatgcccaacaactgagctatttacgcttgcgcctgcagATTTCACCCACTGAAATACGTGGAGCACTTGGTTCTGTTAATCAGCTTTTTATCTGCATTGGAATTCTTGCTGCTCTGGTAGCTGGATTACCTCTGGCAG
upper sequence: GLYMA13G07780.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G098011_T02 (Zea mays), 3'ss of exon 6
---------------------------------------------gtgct-ttatatattattcttatctttgagatcatagactaaataatttatg--tggac-----tgtgtggtaactc--ctcttaatgggcagATTTCACCAACTGAAATTCGTGGTGCGCTAGGATCTGTTAATCAACTTTTTATATGCATTGGGATTCTTCTGGCACTGGTGGCTGGGCTGCCTCTGGCAG
|| | | | || || ||| | || | | | || || | ||| | ||| | | || | || || | |||||| |||||||||||||||||||| | || || || ||||||||||||||||| |||||||| |||||| || || | ||||| ||||| ||||||
gttgtgatacgatgaaacgacagttgctttgttcaaaacctgatgctgttgtgaaatgctacagttacttctgtctttgttcaatagctactgcatgcattgacgaacatctccaacaaatgaacttgtactttgcagATATCACCAACTGAAATTCGTGGAACACTTGGTTCCGTTAATCAACTTTTTATCTGCATTGGAATTCTTGCAGCTTTGTTAGCTGGATTGCCTTTGGCAG
upper sequence: GLYMA13G07780.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G153704_T01 (Zea mays), 3'ss of exon 10
------------------------------gtgctttatatattattcttatctttgagatcatagactaaat-aatttatgtggactgtgtggtaactcctcttaatgggcagATTTCACCAACTGAAATTCGTGGTGCGCTAGGATCTGTTAATCAACTTTTTATATGCATTGGGATTCTTCTGGCACTGGTGGCTGGGCTGCCTCTGGCAG
|| | | || | | || | | | | || | || | | | || | | || | |||||| |||||||||||||||||||| | || || | ||||||||||||||||| |||||||| |||||| || || | ||||| ||||||||||||
gttgtgatacgttgacatgacagttgctttgttcaaaacctaatgctgttgtgatatgtacttctgcctgtgttgatgaacatccccaacaaatgaatttcctgtactctgcagATCTCACCAACTGAAATTCGTGGAACACTTGGTACCGTTAATCAACTTTTTATTTGCATTGGAATTCTTGCAGCTTTGTTAGCTGGATTGCCTCTGGCAG
upper sequence: GLYMA13G07780.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv14s0006g02720.t01 (Vitis vinifera), 3'ss of exon 6
------gtgcttta-tatattattcttatctttgagatcatagactaaataatttatgtggactgtgtggtaactc-------ctcttaatgggcagATTTCACCAACTGAAATTCGTGGTGCGCTAGGATCTGTTAATCAACTTTTTATATGCATTGGGATTCTTCTGGCACTGGTGGCTGGGCTGCCTCTGGCAG
|| || | | | | ||| |||| || | | | | | ||| | || | | | |||| | | ||||| ||||| |||||||||||||||||||||||||| || ||||| |||||||||||||| || |||||||||||| ||| |||||||||| | ||||| ||
gtagtaatgtttcaatttttcattattattattatgctatt--ttttgttcgtttttatgaatgcctttgaaactgaaacacattttaaatggtcagATCTCACCAACTGAAATTCGTGGTGCGCTTGGGTCTGTCAATCAACTTTTTATTTGTATTGGGATTCTTGCAGCATTGGTGGCTGGATTACCTCTAGCCAMapped 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|207818181|gb|GD790198.1|GD790198EST: GTATAGGAATTGGTGTTACATCTGCTATAGTACCACTATACATATCTGAG ATTTCACCAACTGAAATTCGTGGTGCGCTAGGATCTGTTAATCAACTTTTT
genomic: GTATAGGAATTGGTGTTACATCTGCTATAGTACCACTATACATATCTGAGgtgctttata ... taatgggcagATTTCACCAACTGAAATTCGTGGTGCGCTAGGATCTGTTAATCAACTTTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatcatagactaaataatttatgtggactgtgtggtaactcctcttaatgggcagATTTCACCAACTGAAATTCGTGGTGCGCTAGGATCTGTTAATCAACTTTTTATATGCATTGGGATTCTTCTGGCACTGGTGGCTGGGCTGCCTCTGGCAG
ctcctctt CT-rich tract
tagactaaataattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgctttatatattattcttatctttgagatcatagactaaataatttatgtggactgtgtggtaactcctcttaatgggcagATTTCACCAACTGAAATTCGTGGTGCGCTAGGATCTGTTAATCAACTTTTTATATGCATTGGGATTCTTCTGGCACTGGTGGCTGGGCTGCCTCTGGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG