Sequence
atgc intronic sequence ATGC exonic sequenceAAAGGCAGTTCACATTGACCCAATTCAATTTGACATGGAACGCGACCTTATCACTCCAACATATAAGAAGAAGAGGCCACAGTTGCTTAAATACTATCAGgtacaagttgtcaaattctcaggatttcatttcacttcatattgaatagaataggtcttaaagtggaataacctttataaatggaatgttattttttccc...
Basic information
species | Glycine max |
transcript | GLYMA11G02030.1 |
intron # | 17 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G02030.1 (Glycine max), 5'ss of exon 17
lower sequence: GRMZM2G152127_T01 (Zea mays), 5'ss of exon 18
AAAGGCAGTTCACATTGACCCAATTCAATTTGACATGGAACGCGACCTTATCACTCCAACATATAAGAAGAAGAGGCCACAGTTGCTTAAATACTATCAGgtacaagttgtcaaattctcaggatttcatttcact--tcatattgaatagaataggtcttaaagtggaataacctttataaatggaatgttattttttccc
| ||| ||||| | ||||| | || |||||||| |||||||||||||| || || || ||||||||| |||||||| |||| ||| ||||||||||| || ||| | | | || || | | | | | | ||| || ||| || | ||
CAGGGCTGTTCATCTGGACCCCGCACCGTTCGACATGGAGCGCGACCTTATCACCCCGACGTACAAGAAGAAGCGGCCACAGCTGCTGAAACACTATCAGgtatgg--cagcagtttcagataactcgcttgggctaacgacgtcggtgaagcttgaccttcgtgtt-aatgtttttgtcgcttttcgtgcag---------
upper sequence: GLYMA11G02030.1 (Glycine max), 5'ss of exon 17
lower sequence: AT4G11030.1 (Arabidopsis thaliana), 5'ss of exon 18
AAAGGCAGTTCACATTGACCCAATTCAATTTGACATGGAACGCGACCTTATCACTCCAACATATAAGAAGAAGAGGCCACAGTTGCTTAAATACTATCAGgtacaagttgtcaaattctcaggatttcatttcacttcatattgaatagaataggtcttaaagtggaataacctttataaatggaatgttattttttccc
||| | ||||| | || ||| | || ||||||||||| |||||| | |||||||| || || ||||||||||| || ||||| ||||||||||||||| | | ||| | | ||| ||| ||| ||| | ||| ||||| | | || | ||| ||||||||
AAAAGATGTTCATCTGGAACCAGTGGCGTTCGACATGGAACGAGACCTTCTTACTCCAACCTACAAAAAGAAGAGGCCTCAATTGCTCAAATACTATCAGgtaa----ttttaaacattttaggcgatattatgctt-ata----atattttcggttttaaact-------ctctttctattgg--tgttatttaacag-
upper sequence: GLYMA11G02030.1 (Glycine max), 5'ss of exon 17
lower sequence: Vv02s0025g01410.t01 (Vitis vinifera), 5'ss of exon 18
AAAGGCAGTTCACATTGACCCAATTCAATTTGACATGGAACGCGACCTTATCACTCCAACATATAAGAAGAAGAGGCCACAGTTGCTTAAATACTATCAGgta------caagttgtcaaattct--caggatttcatttcacttcatattgaatagaataggtcttaaagtggaataacctttataaatggaatgttattttttccc
|| ||||||||| ||||||| | | |||||| |||||||| ||||| ||||||||||||||||||||||||||||| |||||||| ||||| ||||||||| | | ||| |||| || ||| | | || | | | || ||||| |||| || || | || ||| || | | ||
CAAAGCAGTTCACCTTGACCCTGTGCCATTTGATATGGAACGTGACCTGATCACTCCAACATATAAGAAGAAGAGGCCCCAGTTGCTAAAATATTATCAGgtagctcctctgatcctcatattcatgcatgatgtgaacctgcta-acaatttatggaataa--tttaagcaaaaagaattatcattgatgaaacctggtctt-----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|7693244|gb|AW761339.1|AW761339EST: TCACTCCAACATATAAGAAGAAGAGGCCACAGTTGCTTAAATACTATCAG AATGCCATTGACAACATGTACAAGAGTGGAGGAAGTAAACCCAGTGCCTGA
genomic: TCACTCCAACATATAAGAAGAAGAGGCCACAGTTGCTTAAATACTATCAGgtacaagttg ... ttgtgcacagAATGCCATTGACAACATGTACAAGAGTGGAGGAAGTAAACCCAGTGCCTGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAAGGCAGTTCACATTGACCCAATTCAATTTGACATGGAACGCGACCTTATCACTCCAACATATAAGAAGAAGAGGCCACAGTTGCTTAAATACTATCAGgtacaagttgtcaaattctcaggatttcatttcacttcatattgaatagaataggtcttaaagtggaataacctttataaatggaatgttattttttccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG