Sequence
atgc intronic sequence ATGC exonic sequenceCCACCGCCACTCCAACGCCCTCGTCGACGTTCTTCCACCGGAGGCCGACTCCAGCATCTCGCTCCTCAGCCAGTCCGAGAAGCCTGACGTCACTTATAATgtcagtttctatacgttttgttgttttccctatcgaattttaggttaccgtggcgaaagatgatttctagggttttcgttctagtgctggtttggttagg...
Basic information
species | Glycine max |
transcript | GLYMA11G31450.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G31450.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os02g21970.1 (Oryza sativa), 5'ss of exon 1
CCACCGCCACTCCAACGCCCTCGTCGACGTTCTTCCACCGGAGGCCGACTCCAGCATCTCGCTCCTCAGCCAGTCCGAGAAGCCTGACGTCACTTATAATgtcagttt-ctatacgttttgttgttttccctatcgaattttaggttaccgtggcgaaagatgatttctagggttttcgttctagtgctggtttggttagg
||||||||||| || || ||||||||||| || || || ||||| |||||||||||||| || ||| | || |||||||| |||||||||||| |||||||| || | ||| || | ||| | ||| ||| ||| | | ||| | | | | | || ||| |||
GCACCGCCACTCGAATGCGCTCGTCGACGTGCTGCCGCCCGAGGCGGACTCCAGCATCTCTCTGCTCGGATCATCGGAGAAGCCCAACGTCACTTATACGgtcagttttctgctggattttttctgatccgcgt-gaaccttatgttgatttatctgttctagatctgcctgtaaagtgccatgtttctagttaatttaat
upper sequence: GLYMA11G31450.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G090904_T01 (Zea mays), 5'ss of exon 1
CCACCGCCACTCCAACGCCCTCGTCGACGTTCTTCCACCGGAGGCCGACTCCAGCATCTCGCTCCTCAGCCAGTCCGAGAAGCCTGACGTCACTTATAATgtcagtttctatacgt-tttgttgttttccctatcgaattttaggttaccgtggcgaaagatgatttctagggttttcgttctagtgctggtttggttagg
|| || ||||||||||| || |||||||| || || ||||||||||||||||||||||| | | | ||| |||||||| |||||||||| || || ||||| | | |||| ||| | | | || | | ||||| || | || | | | | | || || | ||| ||
GCATCGTCACTCCAACGCTCTAGTCGACGTGCTGCCGCCGGAGGCCGACTCCAGCATCTCCTTGTTGGGATCGTCGGAGAAGCCCAACGTCACTTACAACgtaagtttatccttgaatttgctgtatccac-atgaagcccttggttaatttgacttcttattacggatctgatgataaatcacttggtcgttatattgtt
upper sequence: GLYMA11G31450.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G038126_T01 (Zea mays), 5'ss of exon 1
CCACCGCCACTCCAACGCCCTCGTCGACGTTCTTCCACCGGAGGCCGACTCCAGCATCTCGCTCCTCAGCCAGTCCGAGAAGCCTGACGTCACTTATAATgtcagtttctatacgttttgttgttttccctatcgaattttaggttaccgtgg---cgaaagatgatttctagggttt-tcgttctagtgctggtttggttagg
|| || ||||||||||| | |||||||| || || || |||||||||||||||||||| | || | ||| |||||||| ||||||| || || || ||||| | | || ||| || | | | ||||| || | | ||| | | | | | || | | | ||| |
GCATCGTCACTCCAACGCTTTAGTCGACGTGCTGCCGCCCGAGGCCGACTCCAGCATCTCCTTGCTGGGATCGTCGGAGAAGCCCAACGTCACCTACAACgtaagtttatccttgaatttgccagatccgcatgaagtcattggttaatttgatttcttattatggatctgatgataaattattgtgtcgttacgttgtt----
upper sequence: GLYMA11G31450.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv06s0004g08220.t01 (Vitis vinifera), 5'ss of exon 1
CCACCGCCACTCCAACGCCCTCGTCGACGTTCTTCCACCGGAGGCCGACTCCAGCATCTCGCTCCTCAGCCAGTCCGAGAAGCCTGACGTCACTTATAATgtcagtttctatacgttttg---ttgttttccctatcgaattttaggttaccgtggcgaaagatgatttctagggttttcgttctagtgctggtttggttagg--
||||||||| ||||| || ||||| || || | || |||||||||||||| ||||||||||| |||||||||||||| ||||| || || || ||||| || |||| | |||| | || |||| | || || || ||||| | | || || || || || ||| | | || | ||
CCACCGCCATTCCAATGCTCTCGTTGATGTCTTGCCGCCGGAGGCCGACTCTAGCATCTCGCTTCTCAGCCAGTCCGAAAAGCCGGATGTTACCTATAACgtaagttctttggggtttaggatttattttttccattgagctt--atttacccttg---aaattgggtttagggtttgatgttatctttcttttacccttcaaatMapped 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|6069862|gb|AW099462.1|AW099462EST: NCAGCATCTCGCTCCTCAGCCAGTCCGAGAAGCCTGACGTCACTTATAAT GACATTGGNAG-ATGTGATATCCAGAAACAGGANATCCGCCGAG-CCGTGG
genomic: CCAGCATCTCGCTCCTCAGCCAGTCCGAGAAGCCTGACGTCACTTATAATgtcagtttct ... tattttttagGACATTGG-AGGATGTGATATCCAGAAACAGGAAATCCGC-GAGGCCGTGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCACCGCCACTCCAACGCCCTCGTCGACGTTCTTCCACCGGAGGCCGACTCCAGCATCTCGCTCCTCAGCCAGTCCGAGAAGCCTGACGTCACTTATAATgtcagtttctatacgttttgttgttttccctatcgaattttaggttaccgtggcgaaagatgatttctagggttttcgttctagtgctggtttggttagg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tccctatc