Sequence
atgc intronic sequence ATGC exonic sequenceATATTTGGTGGTGTTGGTATTGCCTGTCTTCCATTAGGACTTATATTTTCATTTATTCGGCGTCCAAAGGCTGTTATCACTCGCTCGCAGTATATCAAGgtgctatattgttactgaaggagatatattaaattgttgattatgtgtgtatttggttacatgatatgccatactatatttatggtgctcctggctggttactgtag
Basic information
species | Glycine max |
transcript | GLYMA07G18160.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G18160.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os06g03760.2 (Oryza sativa), 5'ss of exon 5
ATATTTGGTGGTGTTGGTATTGCCTGTCTTCCATTAGGACTTATATTTTCATTTATTCGGCGTCCAAAGGCTGTTATCACTCGCTCGCAGTATATCAAGgtgc-tatattgttactgaaggagatatattaa--attgttgattatgtgtgtatttggttacatgatatgccatactatatttatggtgct--cctggctggttactgtag-------------
||||||||||||||||| ||||| || |||||||| ||||||||||| |||||| | ||||| ||||| ||||| || || ||||| || ||||| ||||||| |||||| | || | | | | | | || |||| ||||| ||| |||| || | || | | ||| | | |||| |
ATATTTGGTGGTGTTGGAATTGCTTGCCTTCCATTGGGACTTATATTCTCATTTGTCCGGCGCCCAAAAGCTGTCATTACACGCTCACAATATATAAAGgtgcctatattctcacatacttcttttcaattatgagcattcattagaaccatatttttctactacatataat-tatcactttgaaattttcaatgtggattgagactgaacatattttctgcag
upper sequence: GLYMA07G18160.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM5G871262_T02 (Zea mays), 5'ss of exon 5
ATATTTGGTGGTGTTGGTATTGCCTGTCTTCCATTAGGACTTATATTTTCATTTATTCGGCGTCCAAAGGCTGTTATCACTCGCTCGCAGTATATCAAGgtgctatattgttactgaaggagatatattaaattgttgattatgtgtgtatttggttacatgatatgccatactatatttatggtgctcctggctggttactgtag----------------------------------
|||||||||||||| || |||||||| |||||||| ||||||||||| |||||| ||||||||||||| ||||| || || ||||| || ||||| |||||| || | || | | | | || || | | ||| || | | |||| | | |||| ||| || | | | | ||| ||
ATATTTGGTGGTGTCGGAATTGCCTGCCTTCCATTGGGACTTATATTCTCATTTGTTCGGCGTCCAAAAGCTGTAATTACACGCTCACAATATATAAAGgtgg-gcatacattctcatgtacaccattttgatcataaaggatgcttgcctca---tttgtgatcaatctttctattgctatagtaattgttgattgtttggatatcaatgtttccttgaggttaaaatctgccctgcag
upper sequence: GLYMA07G18160.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G012284_T01 (Zea mays), 5'ss of exon 3
ATATTTGGTGGTGTTGGTATTGCCTGTCTTCCATTAGGACTTATATTTTCATTTATTCGGCGTCCAAAGGCTGTTATCACTCGCTCGCAGTATATCAAGgtgc---tatattgttac-tgaaggagatatatta-aattgttgattatgtgtgtatttggttacatgatatgccatactatatttatggtgctcctggctggttactgtag----------------------------------
|||||||||||||| || |||||||| |||||||| ||||||||||| |||||| |||| |||||||| ||||| || || ||||| || ||||| |||||| || ||| | | | | | | || | || | | || | | | | |||| | | | | ||| || | | | | ||| ||
ATATTTGGTGGTGTCGGAATTGCCTGCCTTCCATTGGGACTTATATTCTCATTTGTTCGTCGTCCAAAAGCTGTAATTACACGCTCACAATATATAAAGgtgggcatacattctcatgtacaacattttgatcataacggaaaaacggatgcttgtgtctct-tgtgatcaatctttttgttgctatagtaattattgattgttcggatatcaatgtttcttgaggttaaacatgtatcctgcag
upper sequence: GLYMA07G18160.1 (Glycine max), 5'ss of exon 5
lower sequence: AT5G01460.1 (Arabidopsis thaliana), 5'ss of exon 5
ATATTTGGTGGTGTTGGTATTGCCTGTCTTCCATTAGGACTTATATTTTCATTTATTCGGCGTCCAAAGGCTGTTATCACTCGCTCGCAGTATATCAAGgtgctatattgttactgaaggagatatattaaattgttgattatgtgtgtatttggt-tacatgatatgccatactatatttatggtgctcctggctggttactgtag---------------
||||||||||||||||||||||| || || || || || ||||| | |||| || |||| |||||||||||||||||||| || |||||||| ||||| | | || | | | | | || | | | | | | | | |||||| || | || ||| | |||| | | |
ATATTTGGTGGTGTTGGTATTGCTTGCCTACCCTTGGGCCTTATCACTGCATTCATCAGGCGACCAAAGGCTGTTATCACTCGGTCACAGTATATAAAGgttcatttgtgctggttattgttgtctacttgtcttcatgcaaagcttttctaaagaatacatg-tacacttcgggtagttggcagtgttagtggcctgacaagtcatctaattgtttttcag
upper sequence: GLYMA07G18160.1 (Glycine max), 5'ss of exon 5
lower sequence: AT3G08930.1 (Arabidopsis thaliana), 5'ss of exon 5
ATATTTGGTGGTGTTGGTATTGCCTGTCTTCCATTAGGACTTATATTTTCATTTATTCGGCGTCCAAAGGCTGTTATCACTCGCTCGCAGTATATCAAGgt---gctatattgttactgaaggag-atatattaaattgttgattatgtgtgtat-ttggttacatgatatgccatactatatttatggtgctcctggctggttactgtag
||||||||||||||||||||||| ||||| |||||||||||||| | |||| || |||| |||||||||||||||||||| || || ||||| ||||| | ||| | | || | || || | | | | |||| | | | | | || |||||| | | || || |||
ATATTTGGTGGTGTTGGTATTGCATGTCTACCATTAGGACTTATCACTGCATTCATCAGGCGACCAAAGGCTGTTATCACTCGATCACAATATATAAAGgtctggttattgttctcctctggaagcatctctctagatcttgagtcaatccctctgtctcttgcatgattaactcca-taaatatattacag-------------------
upper sequence: GLYMA07G18160.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv08s0007g02270.t01 (Vitis vinifera), 5'ss of exon 5
ATATTTGGTGGTGTTGGTATTGCCTGTCTTCCATTAGGACTTATATTTTCATTTATTCGGCGTCCAAAGGCTGTTATCACTCGCTCGCAGTATATCAAGgtgctatattgttact----gaaggag----atatattaaattgttgattatgtgtgtattt--ggttacatgatatgccatact---atatttatggtgctcctggctggttactgtag-----------
|||||||| || ||||||||||| ||| | ||||| ||||||||||||||||| ||||||||||| |||||||||||||| || || ||||||||||||||||| || || || | | | | ||| | ||| ||||| | ||||| ||||| |||| ||| | || ||| || ||| ||||| | |
ATATTTGGAGGGGTTGGTATTGCTTGTTTGCCATTGGGACTTATATTTTCATTCATTCGGCGTCCCAAGGCTGTTATCACACGTTCACAGTATATCAAGgtgctgctttttttctttttaatagtgcatcgtgtatccatttga-aattatctaaatatttttggttatgtgatgatggatatttgcatgtttcaatcacttatggatggttgtcattgatatcctgtagMapped 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|21678030|gb|BQ630381.1|BQ630381EST: CATTTATTCGGCGTCCAAAGGCTGTTATCACTCGCTCGCAGTATATCAAG GAAGCCACTGAACTGGGTAAAAAAGCAAGAGAACTNNNNNNNGCAGCTGAG
genomic: CATTTATTCGGCGTCCAAAGGCTGTTATCACTCGCTCGCAGTATATCAAGgtgctatatt ... gttactgtagGAAGCCACTGAACTGGGTAAAAAAGCAAGAGAACTAAAAAAAGCAGCTGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATATTTGGTGGTGTTGGTATTGCCTGTCTTCCATTAGGACTTATATTTTCATTTATTCGGCGTCCAAAGGCTGTTATCACTCGCTCGCAGTATATCAAGgtgctatattgttactgaaggagatatattaaattgttgattatgtgtgtatttggttacatgatatgccatactatatttatggtgctcctggctggttactgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT