Sequence
atgc intronic sequence ATGC exonic sequenceTTGTTGGAGACAATCATAAAGAACTGTGGAGATATTGTTCACATGCATGTTGCAGAAAGAGATGTGCTTCATGAGATGGTGAAAATAGTAAAGAAAAAGgtatacataatttcttgaatatttttgcagctttctgatgtttctgttttcttcatgtaaaatatgttgatgtgatttgtcatgccaattgtag
Basic information
species | Glycine max |
transcript | GLYMA17G26440.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G26440.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os01g12880.1 (Oryza sativa), 5'ss of exon 3
TTGTTGGAGACAATCATAAAGAACTGTGGAGATATTGTTCACATGCATGTTGCAGAAAGAGATGTGCTTCATGAGATGGTGAAAATAGTAAAGAAAAAGgtatacataatttcttgaatatttttgcagctttctgatgtttctgttttcttcatgtaaaatatgttgatgtgatttgtcatgccaattgtag
| ||||| || || ||||||||||| ||||| | ||||||||||||||||||||||||||| | |||||||||||||| ||||| ||||||||||| | || | | ||| ||||| | || || |||||| | | |||||| || | || | | || ||| ||
CTCTTGGAAACTGCAATCAAGAACTGTGGGGATATATTCCACATGCATGTTGCAGAAAGAGATGTGTTGCATGAGATGGTGAAGATAGTGAAGAAAAAGgtttg----atatgctccatagttttga---tctcaagctgttttgttttaat-gtcctgaatatgatggcatatgttcttgt-cctattacag
upper sequence: GLYMA17G26440.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os02g17350.2 (Oryza sativa), 5'ss of exon 3
TTGTTGGAGACAATCATAAAGAACTGTGGAGATATTGTTCACATGCATGTTGCAGAAAGAGATGTGCTTCATGAGATGGTGAAAATAGTAAAGAAAAAGgtatacataatttcttgaatattt----ttgcagctttctgatgtttctgttttcttcatgtaaaatatgttgatgtgatttgtcatgccaattgtag
|| ||||||| || || || |||||||| || ||||| || ||||| ||||| || | ||| | |||||||| |||||||||||||| ||||||| ||||| ||| || || || || | | |||| | | ||| || | |||| | | | | | | | || | |
TTACTGGAGACGATGATCAAAAACTGTGGGGACATTGTCCATATGCAAGTTGCTGAGAAAGACATACTTCATGAAATGGTGAAAATAGTCAAGAAAAGGgtatgtatataagtttaaaccttaaaagttaaaattgtctggt-tagttgtaaactc--tttaaattttaacgccttattcttttgagcttttag---
upper sequence: GLYMA17G26440.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G153138_T01 (Zea mays), 5'ss of exon 3
TTGTTGGAGACAATCATAAAGAACTGTGGAGATATTGTTCACATGCATGTTGCAGAAAGAGATGTGCTTCATGAGATGGTGAAAATAGTAAAGAAAAAGgtatacataatttcttgaatatttttgcagctttctgatgtttctgttttcttcatgtaaaatatgttgatgtgatttgtcatgccaattgtag
|||||||| || | || || |||||||| ||||| ||||||||||||| ||||| |||||| | | |||||||||||||| ||||| ||||||||||| | |||| || ||||| ||| | | | || | | | | | ||||| ||| | | || ||
TTGTTGGAAACTGTTATTAAAAACTGTGGGGATATACTTCACATGCATGTCGCAGAGAGAGATATATTGCATGAGATGGTGAAGATAGTGAAGAAAAAGgttcaatatgtttcatg------cttgcaaaactctact--tcttattctaatgaactgctggcttatgatggtgttttgttttcatgttacag
upper sequence: GLYMA17G26440.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G062953_T02 (Zea mays), 5'ss of exon 3
TTGTTGGAGACAATCATAAAGAACTGTGGAGATATTGTTCACATGCATGTTGCAGAAAGAGATGTGCTTCATGAGATGGTGAAAATAGTAAAGAAAAAGgtatacataatttcttgaatatttttgcagctttctgatgtttctgttttcttcatgtaaaatatgttgatgtgatttgtcatgccaattgtag
||||||| || | ||||| || ||||| ||||| ||||||||||||||||||| |||||| | | ||||| |||||||| ||||| ||||||||||| | ||| | ||| || ||||| | | ||| | || | | | | | ||||| |||| | | || ||
CTGTTGGAAACTGTTATAAAAAATTGTGGGGATATACTTCACATGCATGTTGCAGAGAGAGATATATTGCATGATATGGTGAAGATAGTGAAGAAAAAGgttca-ata--tgctt---catgcttgcaaaactgta--gttcttattctaatgaactgctggtttctgatggcattttgttttcatgttacag
upper sequence: GLYMA17G26440.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G053925_T01 (Zea mays), 5'ss of exon 3
TTGTTGGAGACAATCATAAAGAACTGTGGAGATATTGTTCACATGCATGTTGCAGAAAGAGATGTGCTTCATGAGATGGTGAAAATAGTAAAGAAAAAGgtatacata-atttcttgaatatttttgcagctttctgatgtttctgttttcttcatgtaaaatatgttgatgtgatttgtcatgccaattgtag
||| ||||||| || ||||| || ||||| || |||| || ||| |||||| || ||||| | |||||||||||||| || ||||||||||||| ||||| | | | || || || | || ||||| | | || |||| || ||| | | | || |||| |||
TTGCTGGAGACGATGATAAAAAATTGTGGGGACGTTGTGCATATGGTTGTTGCTGAGAGAGACATACTTCATGAGATGGTCAAGATAGTAAAGAAAAGGgtatgtgcatacattttaaacctt-----aatttactgat----------tgtcaatagcaaatcc-ttaatgct-tctcttttgaaaattttag
upper sequence: GLYMA17G26440.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv04s0008g03720.t01 (Vitis vinifera), 5'ss of exon 3
TTGTTGGAGACAATCATAAAGAACTGTGGAGATATTGTTCACATGCATGTTGCAGAAAGAGATGTGCTTCATGAGATGGTGAAAATAGTAAAGAAAAAGgtatacataatttcttgaatat--ttttgcagctttctgatgtttctgttttcttcat--gtaaaatatgttgatgtgatttgtcatgccaa-ttgtag
| ||||||||| || |||| ||||||||||||||||| || |||||||| ||||| |||||| | ||||||||||||||||||||||||||||||||||| | | | | | || |||| | | || | | | ||| | || | ||| |||| || |||| | ||| || ||| ||
CTATTGGAGACAGTCGTAAAAAACTGTGGAGATATTGTCCATATGCATGTAGCAGAGAGAGATATTCTTCATGAGATGGTGAAAATAGTAAAGAAAAAGgt-cagactgtcattcaagtaccatttttttgttccctagtttcatttatttacttatccgagaaacctgttcatagtatttattctgcaaaattgcagMapped 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|17021949|gb|BM092983.1|BM092983EST: TTGCAGAAAGAGATGTGCTTCATGAGATGGTGAAAATAGTAAAGAAAAAG CCTGATTTTCATGTCAAAGAAAAGATACTGGTTCTTGTAGATACTTGGCAA
genomic: TTGCAGAAAGAGATGTGCTTCATGAGATGGTGAAAATAGTAAAGAAAAAGgtatacataa ... ccaattgtagCCTGATTTTCATGTCAAAGAAAAGATACTGGTTCTTGTAGATACTTGGCAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTGTTGGAGACAATCATAAAGAACTGTGGAGATATTGTTCACATGCATGTTGCAGAAAGAGATGTGCTTCATGAGATGGTGAAAATAGTAAAGAAAAAGgtatacataatttcttgaatatttttgcagctttctgatgtttctgttttcttcatgtaaaatatgttgatgtgatttgtcatgccaattgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA