Sequence
atgc intronic sequence ATGC exonic sequenceGGTGCCAACATTCTAGTTGATAACAAAGGGTGCATTAAACTCGCTGACTTTGGTGCATCCAAGAAAGTTGTTGAACTGgtatgattgatgttattagttcattatgatcttacaagctttttgtgtaacttgttttgggccatgacatctgaattctgtggattgatatag
Basic information
species | Glycine max |
transcript | GLYMA10G39670.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G39670.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os09g21510.1 (Oryza sativa), 5'ss of exon 6
GGTGCCAACATTCTAGTTGATAACAAAGGGTGCATTAAACTCGCTGACTTTGGTGCATCCAAGAAAGTTGTTGAACTGgtatgattgatgtta-ttagttcattatgatctta----caagctt--tttgtgtaacttgttttgggccatga-catctgaattctgtggattgatatag
|| || |||||||| |||||||||||||| ||||||||||| ||||| ||||| ||||| ||| |||| | | ||||| |||||| | || ||||| | || | ||| ||||| | | |||| | || ||| | | | | || | || |
GGAGCGAACATTCTTGTTGATAACAAAGGATGCATTAAACTTGCTGATTTTGGGGCATCTAAGCAAGTGGCAAAGTTGgtaagattgaaaaaactttgttcaatgtgttattaaggtcaagcataatccaaagaactcatgctgtctcatcttccttttatcaaagttggacaattaa-
upper sequence: GLYMA10G39670.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G098828_T01 (Zea mays), 5'ss of exon 6
GGTGCCAACATTCTAGTTGATAACAAAGGGTGCATTAAACTCGCTGACTTTGGTGCATCCAAGAAAGTTGTTGAACTGgtatgattgatgttattagttcattatgatctta----caagctt--tttgtgtaacttgtt----ttgggccatgacatctgaattctgtggattgatatag
||||| |||||||| |||||||| ||||||||||| ||||| ||||| ||||| ||||| ||| |||||| | ||||| ||| | | || | | | | || |||| |||| | | || || || |||||| || | || | | | | | || |
GGTGCAAACATTCTTGTTGATAATAAAGGGTGCATCAAACTTGCTGATTTTGGGGCATCTAAGCAAGTTGCAAAGTTGgtaagatcaaaataatacgcttagtgtgcccttaaggtcaagtgtaactgatggaagttagcaaacttgggcaataagattgggttagtcagaagagaaa---
upper sequence: GLYMA10G39670.1 (Glycine max), 5'ss of exon 6
lower sequence: AC197029.3_FGT003 (Zea mays), 5'ss of exon 6
GGTGCCAACATTCTAGTTGATAACAAAGGGTGCATTAAACTCGCTGACTTTGGTGCATCCAAGAAAGTTGTTGAACTGgtatgattgatgttattagttcattatgatctta----caagctt--tttgtgtaacttgttt--tgggccatgacatctgaattctgtgga--------ttgatatag---------------------------------
||||| |||||||| || ||||| ||||||||||| ||||| ||||| ||||| ||||| ||| |||| | | ||||| ||| | | || | | | | || ||||| ||| | | | || || |||| || | | ||| || |||| || || |||
GGTGCAAACATTCTTGTAGATAATAAAGGGTGCATCAAACTTGCTGATTTTGGGGCATCTAAGCAAGTGGCAAAGTTGgtaagatcaaaataatatgcttagtgtgctcttaaggtcaactataatcgagggaagttagcaaacgggctataaga-ctgggttagttggaagagaaacttaatttagttgatgaagcattctatgcttaatccaatgtag
upper sequence: GLYMA10G39670.1 (Glycine max), 5'ss of exon 6
lower sequence: AT3G06030.1 (Arabidopsis thaliana), 5'ss of exon 6
GGTGCCAACATTCTAGTTGATAACAAAGGGTGCATTAAACTCGCTGACTTTGGTGCATCCAAGAAAGTTGTTGAACTGgtatgattgatgttattagttcattatgatcttacaagctttttgtgtaacttgttttgggccatgacatctgaattctgtggattgatatag------
|| || || ||| | || ||||||||||| ||||| | |||||| || |||||||| |||||||||||||| || || ||||||||| | | | ||| | | ||| || | | ||| | | | | || || || | |||| | | |||
GGGGCAAATATTTTGGTCGATAACAAAGGTTGCATCAGACTCGCAGATTTTGGTGCTTCCAAGAAAGTTGTAGAGCTAgtatgattg-cgcttctctttctctttaatcatat---ttcaatatgttgcctctctc--ttcagtactctaaaactttgtgaactt-tatgcttctag
upper sequence: GLYMA10G39670.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv05s0020g02910.t01 (Vitis vinifera), 5'ss of exon 6
GGTGCCAACATTCTAGTTGATAACAAAGGGTGCATTAAACTCGCTGACTTTGGTGCATCCAAGAAAGTTGTTGAACTGgtatgattgatgttattagttcattatgatctta--caagctttttgtgtaac-ttgttttgggccatgacatctgaattctgtggattgatatag------
|| || || || || |||||||| || || ||||||||||| || |||||||||||||| |||||||||||||| |||||| | || | | ||| | | || || || || | || | |||| | || | || | | || || || || |
GGGGCAAATATCCTGGTTGATAATAAGGGATGCATTAAACTTGCAGACTTTGGTGCATCTAAGAAAGTTGTTGAGCTGgtaaggcattattttctgttgtattctaaatctaagtaattttattcttcaaggtcattttttgtcagcatattcataat-tgaggttttattctgccgcagMapped 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|192299835|gb|FG990072.1|FG990072EST: GGTGCATTAAACTCGCTGACTTTGGTGCATCCAAGAAAGTTGTTGAACTG GCTACCATCAACGGTGCAAAGTCAATGAAGGGTACACCACATTGGATGTCT
genomic: GGTGCATTAAACTCGCTGACTTTGGTGCATCCAAGAAAGTTGTTGAACTGgtatgattga ... attgatatagGCTACCATCAACGGTGCAAAGTCAATGAAGGGTACACCACATTGGATGTCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGTGCCAACATTCTAGTTGATAACAAAGGGTGCATTAAACTCGCTGACTTTGGTGCATCCAAGAAAGTTGTTGAACTGgtatgattgatgttattagttcattatgatcttacaagctttttgtgtaacttgttttgggccatgacatctgaattctgtggattgatatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA