Sequence
atgc intronic sequence ATGC exonic sequenceGAAACCTGCAGATCCAGAGGAGGAGCTCAGATGGATGTCTCAAGAAGTCCGTGGTTATGTTGAAGCTGTTCTTAACAGCCTTGCAGCTAATGTTCCAAAAgtgagtttattttatcaactaccatagttcttctcttctgatttgatgtggtttgtgagatcatttcactttggttgagcag
Basic information
species | Glycine max |
transcript | GLYMA17G00480.1 |
intron # | 19 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G00480.1 (Glycine max), 5'ss of exon 19
lower sequence: LOC_Os08g32920.1 (Oryza sativa), 5'ss of exon 19
-GAAACCTGCAGATCCAGAGGAGGAGCTCAGATGGATGTCTCAAGAAGTCCGTGGTTATGTTGAAGCTGTTCTTAACAGCCTTGCAGCTAATGTTCCAAAAgtgagtttattttatcaactaccatagttcttctcttctgatttgatgtggtttgtgagatcatt-tcactttggttgagcag
|| || | |||||| ||||| ||||| | |||||| ||||||||||||||||| ||||| ||||||||||| | ||| ||||| || ||||| || || | || | | | | | | || | | || ||| ||| | ||| | || | | ||||||
GAAAGCCAGTAGATCCTGAGGAAGAGCTTAAATGGATATCTCAAGAAGTCCGTGGGTATGTGGAAGCTGTTCTCAGCAGTCTTGCGGCAAATGTCCCCAAgttaagcatgtctggtgtcttgcttaagctttcctggtctcctttctagcttcttgcattaatatcattgatcctgttgag---
upper sequence: GLYMA17G00480.1 (Glycine max), 5'ss of exon 19
lower sequence: LOC_Os02g50550.1 (Oryza sativa), 5'ss of exon 19
GAAACCTGCAGATCCAGAGGAGGAGCTCAGATGGATGTCTCAAGAAGTCCGTGGTTATGTTGAAGCTGTTCTTAACAGCCTTGCAGCTAATGTTCCAAAAgt--------gagttt----attttatcaactaccata--gttcttctcttctgatttgatgtggt-----ttg----tgagatcatttcactttggttgagcag
||| ||||| ||||| || || || || | ||||||||||||||||| ||||||||||| || |||||| | ||||| | ||||| ||||||||||| || || | ||| | ||||| |||| || || |||| | |||| ||| || || ||| ||| ||| |||
GAAGCCTGCTGATCCTGAAGAAGAACTTCGGTGGATGTCTCAAGAAGTTCGTGGTTATGTAGAGGCTGTTTTGAACAGTTTGGCAGCAAATGTTCCAAAGgtttacatttgaacctcacaattgtttcaacagtcatactattttttaaactcaatttaacatggtcatagttgcaattgttattattgtctttttcatgatcag
upper sequence: GLYMA17G00480.1 (Glycine max), 5'ss of exon 19
lower sequence: LOC_Os06g13820.1 (Oryza sativa), 5'ss of exon 19
GAAACCTGCAGATCCAGAGGAGGAGCTCAGATGGATGTCTCAAGAAGTCCGTGGTTATGTTGAAGCTGTTCTTAACAGCCTTGCAGCTAATGTTCCAAAAgtgagtttattttatcaactaccatagttcttctcttctgat----ttgatgtgg-----tttgtgagatcatttcactttggttgagcag
|| |||||| ||||| || || || || ||||||||||| || ||||| |||||||||||||| |||||| | || || || ||||| ||||| ||||| || | | | ||| ||| | || | || | || | ||||| || | | |||| | || | | |||
GAGACCTGCTGATCCTGAAGAAGAACTTAGATGGATGTCCCATGAAGTTCGTGGTTATGTTGAGGCTGTTTTGAATAGTCTGGCAGCAAATGTCCCAAAGgtttacattaaaaaaaagctagcattgctcatttcattggaccctgtcattgtggcaatgttcttattgttttttccccttctcttatcag
upper sequence: GLYMA17G00480.1 (Glycine max), 5'ss of exon 19
lower sequence: GRMZM5G870253_T01 (Zea mays), 5'ss of exon 3
GAAACCTGCAGATCCAGAGGAGGAGCTCAGATGGATGTCTCAAGAAGTCCGTGGTTATGTTGAAGCTGTTCTTAACAGCCTTGCAGCTAATGTTCCAAAAgtgagtttattttatcaactaccatagttcttctcttctgatttgatgtggtttgtgagatcatttcac--tttggttgagcag
|| ||||| ||||| || || || || ||||||||||||||||||||||||||||||||||||||||| | ||||| | || || ||||||||||| || || | | | || | | | | | | | | |||| || || | | ||| |||| ||| |||
GAGGCCTGCTGATCCTGAAGAAGAACTTCGATGGATGTCTCAAGAAGTCCGTGGTTATGTTGAAGCTGTTTTGAACAGTTTGGCTGCAAATGTTCCAAAGgt----ttgtactcgtagcttcagttgattctttgaacct-tgtgatttgtggagtaacgttcttttgtcttttgcatgaccag
upper sequence: GLYMA17G00480.1 (Glycine max), 5'ss of exon 19
lower sequence: GRMZM5G811223_T01 (Zea mays), 5'ss of exon 7
GAAACCTGCAGATCCAGAGGAGGAGCTCAGATGGATGTCTCAAGAAGTCCGTGGTTATGTTGAAGCTGTTCTTAACAGCCTTGCAGCTAATGTTCCAAAAgtgagt-ttattttatcaactaccatagttcttctcttctgatttgatgtggtttgtgagatcatttcactttggttgagcag
|| ||| || ||||| || || || || |||||||||||||||||||| |||||||||||||| |||||| | || || || ||||| |||||||| || || | || || | | || | || | || | | | || ||| | | | | ||| | |
GAGACCAGCTGATCCTGAAGAAGAACTTAGATGGATGTCTCAAGAAGTTCGTGGTTATGTTGAGGCTGTTTTGAATAGTCTGGCAGCAAATGTTCCGAAGgttcatattgttctgttaatcagtttaaatggccttgtatt-tgtgtcaaattttcattgcttgtctgtacttgttag-----
upper sequence: GLYMA17G00480.1 (Glycine max), 5'ss of exon 19
lower sequence: GRMZM2G157462_T01 (Zea mays), 5'ss of exon 19
GAAACCTGCAGATCCAGAGGAGGAGCTCAGATGGATGTCTCAAGAAGTCCGTGGTTATGTTGAAGCTGTTCTTAACAGCCTTGCAGCTAATGTTCCAAAAgtgagt-ttattttatcaactaccatagttcttctcttctgatttgatgtggtttgtgagatcatttcactttggttgagcag
| |||||| ||||| || || || || |||||||||||||||||||| ||||||||||| || |||||| | || || || ||||| ||||||||||| || | || | | ||||| | || | || || | || | || | | | | |||
TAGACCTGCTGATCCTGAAGAAGAACTTAGATGGATGTCTCAAGAAGTTCGTGGTTATGTCGAGGCTGTTTTGAATAGTCTGGCAGCAAATGTTCCAAAGgttcatattggtctgtcaaccagtttaaatggccttttat--ttgtgtcaaattcttattgtttgtctgtacttgttag----
upper sequence: GLYMA17G00480.1 (Glycine max), 5'ss of exon 19
lower sequence: AT1G10290.1 (Arabidopsis thaliana), 5'ss of exon 19
GAAACCTGCAGATCCAGAGGAGGAGCTCAGATGGATGTCTCAAGAAGTCCGTGGTTATGTTGAAGCTGTTCTTAACAGCCTTGCAGCTAATGTTCCAAAAgtgagtttattttat---------caactaccatagttcttctcttctgatttgatgtggtttgtgagatcatttcactttggt--tgagcag--------------------
|||||| |||||||| ||||||||| | |||||||| |||||||| || ||||| ||||||||||||||||||||||||||||| ||||||||||| |||| | |||| | | | || | |||| || | | || ||||| | || | | |||
GAAACCCATCGATCCAGAAGAGGAGCTCCGGTGGATGTCCCAAGAAGTACGGGGTTACGTTGAAGCTGTTCTTAACAGCCTTGCAGCCAATGTTCCAAAGgtgaactatccttatgcaaaagctcgaaagctctaaattttcttgtccatctcttttctcttacagagattcctcggtcatgctactaagcgatgtgaattgaccatgaacag
upper sequence: GLYMA17G00480.1 (Glycine max), 5'ss of exon 19
lower sequence: AT1G59610.1 (Arabidopsis thaliana), 5'ss of exon 19
GAAACCTGCAGATCCAGAGGAGGAGCTCAGATGGATGTCTCAAGAAGTCCGTGGTTATGTTGAAGCTGTTCTTAACAGCCTTGCAGCTAATGTTCCAAAAgtgagtttattttatcaactaccatagttcttctcttctgat-ttgatgtggtttgtgag-atcatttcactttggttgagcag------------
|||||| | || || || ||||| | | |||||||| |||||||| || |||||||||||||||||||| ||||| || || || ||||||||||| ||| | | | | | ||||| ||| || || | | || | | | |||| || | | | |
GAAACCGGTCGACCCGGAAGAGGAATTACGGTGGATGTCCCAAGAAGTACGGGGTTATGTTGAAGCTGTTCTCAACAGTCTAGCTGCCAATGTTCCAAAGgtggactagtcacttttcttgtga--attcttaaattcccatgccaatatcgcttttcattactcgatcacattactaaatctgtgacttcaacag
upper sequence: GLYMA17G00480.1 (Glycine max), 5'ss of exon 19
lower sequence: Vv12s0035g01740.t01 (Vitis vinifera), 5'ss of exon 19
GAAACCTGCAGATCCAGAGGAGGAGCTCAGATGGATGTCTCAAGAAGTCCGTGGTTATGTTGAAGCTGTTCTTAACAGCCTTGCAGCTAATGTTCCAAAAgtgagtttattttatcaa--ctaccatagttcttctcttctgat-ttgatgtggtt-tgtgagatcatttcact-------ttggttgagcag
| |||||| |||||||| || |||||| ||||||||||||||||||| ||||||||||||||||||||||| ||||||||||| || ||||| |||||||| |||| |||| | || | | || ||| | | || || | | ||| ||| | |||| || | | |||||||||||
AAGACCTGCCGATCCAGAAGAAGAGCTCCGATGGATGTCTCAAGAAGTGCGTGGTTATGTTGAAGCTGTTCTGAACAGCCTTGCTGCCAATGTCCCAAAAgtcggtttgttttcttaaatccattatgattcatgtattttgttgcttttgtagttctctgagtcttctttattacctgttctggttgagcagMapped 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|17400218|gb|BM177000.1|BM177000EST: GTGGTTATGTTGAAGCTGTTCTTAACAGCCTTGCAGCTAATGTTCCAAAA GCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTGAACCAG
genomic: GTGGTTATGTTGAAGCTGTTCTTAACAGCCTTGCAGCTAATGTTCCAAAAgtgagtttat ... ggttgagcagGCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTGAACCAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAAACCTGCAGATCCAGAGGAGGAGCTCAGATGGATGTCTCAAGAAGTCCGTGGTTATGTTGAAGCTGTTCTTAACAGCCTTGCAGCTAATGTTCCAAAAgtgagtttattttatcaactaccatagttcttctcttctgatttgatgtggtttgtgagatcatttcactttggttgagcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT