Sequence
atgc intronic sequence ATGC exonic sequenceTCTTTACCACAGAACCTTATGCTTGCGATCCTTCAAGTCTTCCAAAATATCCCCCAAGCAAGGAAATGGATGCTAAACAACGGGATGATGAAATGAGGAGgtatctctgctctaaagtttcctttctgcgtaccagaagtatttgcatatttatataaggactgtaatgagtaaatgtagggtgttgaccctgatattac...
Basic information
species | Glycine max |
transcript | GLYMA19G42960.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G42960.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os03g22700.1 (Oryza sativa), 5'ss of exon 4
TCTTTACCACAGAACCTTATGCTTGCGATCCTTCAAGTCTTCCAAAATATCCCCCAAGCAAGGAAATGGATGCTAAACAACGGGATGATGAAATGAGGAGgtatctc-------tgctctaaagtttcctt-tctgcgtaccagaagtatttgcatatttatataaggactgtaatgagtaaatgtagggtgttgaccctgatattac
||||||| || ||||||||||| || || || |||||||| ||| |||||| |||||||| ||||||||||| |||| | | ||||| ||| || ||| | || | ||| ||||| || | || | | | || | | | | ||| || | || ||| | | |
TCTTTACAACTGAACCTTATGCATGTGAACCATCAAGTCTCCCAGCATATCCTCCAAGCAAAGAAATGGATGCAAAACGAAGAGATGAAGAAGCCAGACGgtttgtcaccttgatactcattagttttattatttgtttgttattcgctttggtccttggctgtctctctagtactggacactctgtggttgtagcactt--------
upper sequence: GLYMA19G42960.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G084347_T01 (Zea mays), 5'ss of exon 5
TCTTTACCACAGAACCTTATGCTTGCGATCCTTCAAGTCTTCCAAAATATCCCCCAAGCAAGGAAATGGATGCTAAACAACGGGATGATGAAATGAGGAGgtatctctgctctaaagtttcctttctgcgtaccagaagtatttgcatatttatata-aggactgtaatgagtaaatgtagggtgttgaccctgatattac--
||||||| || ||||||| ||| ||||| || |||||||||||||||||||| |||||||| || || |||| |||| | | || || ||| || ||| | || ||| | || | | || | || || |||| | | ||| || || | | | || | |
TCTTTACAACCGAACCTTTTGCATGCGAACCGTCAAGTCTTCCAAAATATCCTCCAAGCAAAGAGATAGATGTGAAACGAAGAGACGAAGAAGCCAGACGgtttgtcacctcaccacttatttcatta---gttaggatgatcaacagtggtataaacatatctgctttgggtgtacagtaacaaatcatgctatgagcatag
upper sequence: GLYMA19G42960.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G156251_T01 (Zea mays), 5'ss of exon 5
TCTTTACCACAGAACCTTATGCTTGCGATCCTTCAAGTCTTCCAAAATATCCCCCAAGCAAGGAAATGGATGCTAAACAACGGGATGATGAAATGAGGAGgtatctctgctctaaagtttcctttctgcgtaccagaagtatttgcatatttatataaggactgtaatgagt-aaatgtagggtgttgac-cctgatattac
| ||| | || || ||||||||||| | ||||||||||| |||| |||||| ||||||||||| |||||||| || | | || || || || |||| | || | || ||| | | | | | || || |||| | || | |||| | | || || || | || ||
TTTTTTCAACCGAGCCTTATGCTTGTAACCCTTCAAGTCTGCCAACATATCCACCAAGCAAGGAGATGGATGCCAAGTTAAGAGACGAGGAGGCTAGAAGgtgtgtcacatttaccctttttactttttgctggacatacatgtggatataaacatgtttgaggctttgagccatacctacaacatttacatcacatgtt--
upper sequence: GLYMA19G42960.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G052206_T02 (Zea mays), 5'ss of exon 5
TCTTTACCACAGAACCTTATGCTTGCGATCCTTCAAGTCTTCCAAAATATCCCCCAAGCAAGGAAATGGATGCTAAACAACGGGATGATGAAATGAGGAGgtatctctgctctaaagtttcctttctgcgta-------ccagaagtatttgcatatttatataaggactgtaatgagtaaatgtagggtgttgaccctgatattac
||||||| || ||||||| ||| || || || || ||||||||||||||||| |||||||| ||||| |||| ||| | | || || ||| || ||| | || || | || | | | || |||| || | ||| || | | || | | | || | |||||| | | ||
TCTTTACAACTGAACCTTTTGCATGTGAACCATCGAGTCTTCCAAAATATCCTCCAAGCAAAGAAATAGATGTGAAAAGAAGAGACGAAGAAGCCAGACGgtttgtcaccttgccacttatttcattacttaggatgatccagtgtcataaacttatctactttgagtttgcagtaacaaact------tgttgatctataaatgc-
upper sequence: GLYMA19G42960.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv14s0030g01260.t01 (Vitis vinifera), 5'ss of exon 8
TCTTTACCACAGAACCTTATGCTTGCGATCCTTCAAGTCTTCCAAAATATCCCCCAAGCAAGGAAATGGATGCTAAACAACGGGATGATGAAATGAGGAGgtatctctg-ctctaaagtttcc-----tttctgcgtaccagaagtatttgcatatttatataaggactgtaatgagtaaatgtagggtgttgaccctgatattac
|||| || || ||||||||||||| || || || || ||||| ||||||| ||||||||||| |||||||| || || ||||||||| | |||| | || || | || ||| || || | | | || | || |||| | | |||| || | || | ||| |
TCTTCACAACGAAACCTTATGCTTGTGAACCATCTAGCCTTCCGCAATATCCTCCAAGCAAGGAGATGGATGCCAAGAGGCGAGATGATGAAGCTCGAAGgtgtggttgacttttaactttgtataaacttttgaattcatgttgtttctgagagtttactttataactgcaactattactttacataaattgcatatag------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|21256192|gb|BQ453080.1|BQ453080EST: CCCCCAA-TAAGTAATTGGATGCTAAACAACGGGATGATGAAATGAGGAG ACTAACAGCTGCAGGCAAAGCTCAGGCTGATGGTCCAAAGAAGCATCATAC
genomic: CCCCCAAGCAAGGAAATGGATGCTAAACAACGGGATGATGAAATGAGGAGgtatctctgc ... gaatggtcagACTAAGAGCTGCAGGCAAAGCTCAGGCTGATGGTCCAAAGAAGCATCATAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCTTTACCACAGAACCTTATGCTTGCGATCCTTCAAGTCTTCCAAAATATCCCCCAAGCAAGGAAATGGATGCTAAACAACGGGATGATGAAATGAGGAGgtatctctgctctaaagtttcctttctgcgtaccagaagtatttgcatatttatataaggactgtaatgagtaaatgtagggtgttgaccctgatattac
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG