Sequence
atgc intronic sequence ATGC exonic sequenceATGTGGCTTGCCAACTAATTTTGATTCTACTTACTGCTATGCATTGGGTTATGGTGCTGCAGCCCTCCTTCAAAGTGGGAAGACTGGATTAATATCATCGgtttgtgcctatgctcttcacattatcttctaatcatcaaattagatatttcttctagattggttttaatgattgattgtggttcaaaatgtttggtaatactgggtccatcaactcaattttttgatttgctatgatattttgatcag
Basic information
species | Glycine max |
transcript | GLYMA07G39380.2 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G39380.2 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G143862_T01 (Zea mays), 5'ss of exon 5
ATGTGGCTTGCCAACTAATTTTGATTCTACTTACTGCTATGCATTGGGTTATGGTGCTGCAGCCCTCCTTCAAAGTGGGAAGACTGGATTAATATCATCGgt-ttgtgcctatgctcttcacattatcttctaatcatcaaattag--atatttcttctagattggttttaatgattgattgt--ggttcaaaatgtttggtaatactgggtccatcaactcaattttttgatttgctatgatattttgatcag
||| ||| | || |||||||||||||||| || ||||||||||| || |||||||||| ||||| || |||||||||||||| ||| | || || ||||| | || || ||| |||| | || | |||||| || ||| || | | | | || | || | || || ||| | |
ATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTATGCATTAGGCTATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttctgaccttatcatcttatgtgatatac-tcaaatgagtcatacttgtattgtacctcgtaaaactgtgagttctctggcacagaatagatag-----------------------------------------------------
upper sequence: GLYMA07G39380.2 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G059151_T01 (Zea mays), 5'ss of exon 12
ATGTGGCTTGCCAACTAATTTTGATTCTACTTACTGCTATGCATTGGGTTATGGTGCTGCAGCCCTCCTTCAAAGTGGGAAGACTGGATTAATATCATCGgtttgtgcctatgctcttcacattatcttctaatcatcaaattagatatttcttctagattggttttaatgattgattgtggttcaaaatgtttggtaata-ctgggtccatcaactcaattttttgatttgctatgatattttgatcag
||| ||| | || |||||||||||||||| || ||||||||||| || ||||| |||| ||||| || |||||||||||||| ||| | || || ||||| | | || |||| |||| ||| | | | | | | | || | | | || | ||||| | || || | || | |||| | ||| |
ATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTATGCATTAGGCTATGGCGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCCTCGgtata-actgttgatcttaacat---cttatgttgacatactcaaacatcttatgttgacatactcaaatgag-gcttactgtaccg--tgccttgtaagatctgtg-------------------------------------------
upper sequence: GLYMA07G39380.2 (Glycine max), 5'ss of exon 12
lower sequence: AT1G12000.1 (Arabidopsis thaliana), 5'ss of exon 12
ATGTGGCTTGCCAACTAATTTTGATTCTACTTACTGCTATGCATTGGGTTATGGTGCTGCAGCCCTCCTTCAAAGTGGGAAGACTGGATTAATATCATCGgtttgtgcctatgctcttcacattatcttctaatcatcaaattagatatttcttctagattggttttaatgattgattgtg-gttcaaaatgtttggtaatactgggtccatcaactcaattttttgatttgctatgatattttgatcag
||| |||||||| || ||||||||| | || ||||| |||||| | |||||||| |||| || ||||| | ||||||||||| ||| |||| || ||||||||| | | ||| | || |||| || || | | || || | ||| | | | | || | | | || || | | | || | ||
ATGCGGCTTGCCCACAAATTTTGATGCCACATACTGTTATGCACTTGGTTATGGCGCTGGAGTACTCCTCAACAGTGGGAAGACCGGACTAATTTCTTCGgtttgtac--------tccaccatttccactaaaatctgttttccatctgtgatcataatagcctttggtaaactagtatgtgcttagaa----tgagatgagttaacttattggcgcag------------------------------
upper sequence: GLYMA07G39380.2 (Glycine max), 5'ss of exon 12
lower sequence: Vv10s0116g00360.t01 (Vitis vinifera), 5'ss of exon 12
ATGTGGCTTGCCAACTAATTTTGATTCTACTTACTGCTATGCATTGGGTTATGGTGCTGCAGCCCTCCTTCAAAGTGGGAAGACTGGATTAATATCATCGgtttgtgcctatgctcttcacattatcttctaatcatcaaattagatatttcttctagattggtttt--aatgattgattgtggttcaaaatgtttggtaatactgggtccatcaa---ctcaattttttgatttgctatgatattttgatcag----------------------
||||| || |||||||| || ||| || | ||||||||||||||||||| || ||||| ||| |||||||| ||||||| ||||| | |||||||||||| || | | | || || || | | || || | || ||| | | |||| ||| | ||| || || | | | | | || ||| | | | | || || | | | ||| |
GTGTGGTTTTCCAACTAACTTCGATGCTGCCTACTGCTATGCATTGGGTTTTGCTGCTGGAGCTCTCCTTCACTGTGGGAAAACTGGGCTGATATCATCGgttggttcttcattccgcttaatcatttttgtactttttgatcag-tcttccttttttttcatttttccaatatctcattctgcttatagagttcaaactcttgttattctatcgaaggttatagtagttaataactgaacaaactttttgtaattgtttctcatcatgtcttcag
upper sequence: GLYMA07G39380.2 (Glycine max), 5'ss of exon 12
lower sequence: EFJ13842 (Selaginella moellendorffii), 5'ss of exon 12
ATGTGGCTTGCCAACTAATTTTGATTCTACTTACTGCTATGCATTGGGTTATGGTGCTGCAGCCCTCCTTCAAAGTGGGAAGACTGGATTAATATCATCGgtttgtgcctatgctcttcacattatcttctaatcatcaaattagatatttcttctagattggttttaatgattgattgtggttcaaaatgtttggtaatactgggtccatcaactcaattttttgatttgctatgatattttgatcag
||||| | || || ||||||||||| |||||||||||||| ||||| |||| || | ||| |||||||| ||| |||| ||||| || | ||||| ||| | | || | || | || | || | ||||| ||
GTGTGGTCTACCGACAAATTTTGATTCAACTTACTGCTATGCGTTGGGCTATGCCGCAGGAGCGCTCCTTCATGCTGGACAGACAGGATTGATTGCCTCGgtctgtagtgaag----------taccatccagctatagtgtgtgactaatgctctagtttccag------------------------------------------------------------------------------------
upper sequence: GLYMA07G39380.2 (Glycine max), 5'ss of exon 12
lower sequence: EFJ12684 (Selaginella moellendorffii), 5'ss of exon 12
ATGTGGCTTGCCAACTAATTTTGATTCTACTTACTGCTATGCATTGGGTTATGGTGCTGCAGCCCTCCTTCAAAGTGGGAAGACTGGATTAATATCATCGgtttgtgcctatgctcttcaca-ttatcttctaatcatcaaattagatatttcttctagattggttttaatgattgattgtggttcaaaatgtttggtaatactgggtccatcaactcaattttttgatttgctatgatattttgatcag
||||| | || || ||||||||||| |||||||||||||| ||||| |||| || | ||| |||||||| ||| |||| ||||| || | ||||| ||| | | | || ||| | | | | || | | | ||| ||
GTGTGGTCTACCGACAAATTTTGATTCAACTTACTGCTATGCGTTGGGCTATGCCGCAGGAGCGCTCCTTCATGCTGGACAGACAGGATTGATTGCCTCGgtctgtagtgaagtaccatccagctatagtgtg-ttactaa---tgctctagtttccag-------------------------------------------------------------------------------------------Mapped 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|26058870|gb|CA801784.1|CA801784EST: ATGGTGCTGCAGCCCTCCTTCAAAGTGGGAAGACTGGATTAATATCATCG GTTGGTAATTTATGTGCTCCTGTAGAAGAATGGACTGTTGGTGGAACTGCA
genomic: ATGGTGCTGCAGCCCTCCTTCAAAGTGGGAAGACTGGATTAATATCATCGgtttgtgcct ... ttttgatcagGTTGGTAATTTATGTGCTCCTGTAGAAGAATGGACTGTTGGTGGAACTGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGTGGCTTGCCAACTAATTTTGATTCTACTTACTGCTATGCATTGGGTTATGGTGCTGCAGCCCTCCTTCAAAGTGGGAAGACTGGATTAATATCATCGgtttgtgcctatgctcttcacattatcttctaatcatcaaattagatatttcttctagattggttttaatgattgattgtggttcaaaatgtttggtaatactgggtccatcaactcaattttttgatttgctatgatattttgatcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA