Sequence
atgc intronic sequence ATGC exonic sequenceGTGGTAGGAACTCCTAATTACATGTGCCCTGAACTGCTTGCTGATATTCCATATGGATTCAAATCTGATATTTGGTCACTAGgtatgtatgttataaccaagtatctaatacttgcagatttggttttgctgcagctaaaatgaattttacttgttcag
Basic information
species | Glycine max |
transcript | GLYMA12G09910.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G09910.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G137118_T02 (Zea mays), 5'ss of exon 10
GTGGTAGGAACTCCTAATTACATGTGCCCTGAACTGCTTGCTGATATTCCATATGGATTCAAATCTGATATTTGGTCACTAGgtatgtatgttataac-----caagtatct-aatacttgcagat-ttggttttgctgcagctaaaatgaattttacttgttcag-------------------
||||| || || || |||||||||||||| || ||||| ||||||||||| ||||| ||||| || || || ||||| || ||||| || ||| || | ||| | | | | || | |||| || | ||| | | | | | || || | |
GTGGTCGGGACACCAAATTACATGTGCCCAGAGCTGCTAGCTGATATTCCCTATGGTTTCAAGTCAGACATCTGGTCTCTCGgtat-tacgttttacctggttcaattctttcagtaatgtgagatgtttacataactggtgatttattataaattcctgacttaacatgttttcatttgcttag
upper sequence: GLYMA12G09910.1 (Glycine max), 5'ss of exon 9
lower sequence: AT3G44200.1 (Arabidopsis thaliana), 5'ss of exon 9
GTGGTAGGAACTCCTAATTACATGTGCCCTGAACTGCTTGCTGATATTCCATATGGATTCAAATCTGATATTTGGTCACTAGgtatgtatgttataaccaagtatctaatacttgcagatttggttttgctgcagctaaaatgaattttacttgttcag
|| || |||||||| || ||||||||||| ||||||||||||||||| || ||||| || || || ||||| ||||| ||||||||| | | | | ||| || ||| ||| | || | |||| | || |||
GTTGTTGGAACTCCAAACTACATGTGCCCGGAACTGCTTGCTGATATCCCTTATGGTTTTAAGTCAGATATCTGGTCCTTAGgtatgtgtaaccctgtc--ctttgtaaagtttaagatttttgttattgtgaaactaagcctgtatgctggtgaacag
upper sequence: GLYMA12G09910.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv06s0009g00690.t01 (Vitis vinifera), 5'ss of exon 9
GTGGTAGGAACTCCTAATTACATGTGCCCTGAACTGCTTGCTGATATTCCATATGGATTCAAATCTGATATTTGGTCACTAGgtatgtatgttataaccaagtatctaatacttgcagatttggttttgct-gcagctaaaatgaattttacttgttcag
|| || |||||||| ||||||||||| |||||||| ||||| |||||||| ||||| |||||||||||||| ||||| |||||||||| | || | | | ||| || ||| || ||| | | |||||| | || || | ||||
GTAGTTGGAACTCCCAATTACATGTGTCCTGAACTTCTTGCAGATATTCCTTATGGCTTCAAATCTGATATCTGGTCTCTAGgtatgtgttttcatagtgtctgg-tgatatttatggatctgcagttgtttgtggctaaattttgcattgct-gatcag
upper sequence: GLYMA12G09910.1 (Glycine max), 5'ss of exon 9
lower sequence: PP1S22_216V6.1 (Physcomitrella patens), 5'ss of exon 9
GTGGTAGGAACTCCTAATTACATGTGCCCTGAACTGCTTGCTGATATTCCATATGGATTCAAATCTGATATTTGGTCACTAGgtatgtatgttataacca-----agtatctaatacttgcagatttggttttgctgcagctaaaatgaattttacttgt--tcag-------------------
|| ||||| ||||| ||||||||||| || || || ||||| || || ||||||||||||||||| || ||||||||| |||||| | |||| | | | ||| | || ||| || |||| | || | | || | ||
GTAGTAGGCACTCCAAATTACATGTGTCCAGAGCTACTTGCAGACATCCCATATGGATTCAAATCAGACATTTGGTCATTAGgtagtcagcttatttctctcttcactttctgttgagacaagtcctggacttactgctggtagccctcacctggtttctgatcgtgacatcttgttgtctgcagMapped 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|5058284|gb|AI736760.1|AI736760EST: ACTGCTTGCTGATATTCCATATGGATTCAAATCTGATATTTGGTCACTAG GGTTGCTGGATATACGAGATGGCTGCTCATCGCCCTGCTTTTAAAGCTTTT
genomic: ACTGCTTGCTGATATTCCATATGGATTCAAATCTGATATTTGGTCACTAGgtatgtatgt ... acttgttcagGGT-GCTGTATATACGAGATGGCTGCTCATCGCCCTGCTTTTAAAGCTTTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGGTAGGAACTCCTAATTACATGTGCCCTGAACTGCTTGCTGATATTCCATATGGATTCAAATCTGATATTTGGTCACTAGgtatgtatgttataaccaagtatctaatacttgcagatttggttttgctgcagctaaaatgaattttacttgttcag
- - - - - - - - - - - - - - - - - - - GCTGAT