Sequence
atgc intronic sequence ATGC exonic sequenceAGCACCCGTCGAAAACCCGCTCTTCAAAACTCTCGAACTCGGCGCCTTGTTTGGCTTATGGTACCTCTTCAACATCTACTTCAACATCTACAACAAACAGgtcctaattctccccgctctctcatcagatcttatttagaaacaaatgagaaaaaaaaaacgattatttgctgaacgacgatcattttattttacctaac...
Basic information
species | Glycine max |
transcript | GLYMA06G19250.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G19250.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv17s0000g08560.t01 (Vitis vinifera), 5'ss of exon 1
-AGC-ACCCGTCGAAAACCCGCTCTTCAAAACTCTCGAACTCGGCGCCTTGTTTGGCTTATGGTACCTCTTCAACATCTACTTCAACATCTACAACAAACAGgtcctaattctccccgctctctcatcagatcttatttagaaacaaatgagaaaaaaaaaacgattatttgctgaacgacgatcattttat-tttacctaac-----
||| | |||| | | | | | || | | ||||| ||||| || | |||||||| ||||| ||||||||||| ||||||||||| ||||| | | | | | | || || |||| | | ||| ||| | || | | || ||| ||| ||| | |
GAGCGAGAAGTCGGGGAACT--TGGTTCAGACGTTGCAGCTCGGGTTGTTGTTCGGTCTTTGGTACCTTTTCAATATCTACTTCAATATCTACAACAAGCAGgtttg---tttttgtggtgtgtgttctgaa---atttgagatttttcgtagcaaagcctctgatgaactgacgtaataccgccatgttaggcttaattgatgtgag
upper sequence: GLYMA06G19250.1 (Glycine max), 5'ss of exon 1
lower sequence: EFJ27053 (Selaginella moellendorffii), 5'ss of exon 1
AGCACCCGTC-GAAAACCCGCTCTTCAAAACTCTCGAACTCGGCGCCTTGTTTGGCTTATGGTACCTCTTCAACATCTACTTCAACATCTACAACAAACAGgtcctaattctccccgctctctcatcag-atcttatttagaaacaaatgagaaaaaaaaaacgattatttgctgaacgacgatcattttattttacctaac
||| || | | | || | | || ||| | || || | | || || || |||||||||||||||||||||||||||||||| ||||| |||| | |||| | || | ||| || | |||| ||| | | | | | | | || || | | || || | |
-GCAAGAATCCGGCAGCGCGATGATGCGCACACTCCAGCTGGGATCGCTCTTCGGATTGTGGTACCTCTTCAACATCTACTTCAACATCTATAACAAGCAGgcattgtttcttctcgttttcttttctccaccttagctaggatcttctcttgttttctccatgcatgct-actttctaactagaacttgtgatttctcag-
upper sequence: GLYMA06G19250.1 (Glycine max), 5'ss of exon 1
lower sequence: EFJ05868 (Selaginella moellendorffii), 5'ss of exon 1
AGCACCCGTC-GAAAACCCGCTCTTCAAAACTCTCGAACTCGGCGCCTTGTTTGGCTTATGGTACCTCTTCAACATCTACTTCAACATCTACAACAAACAGgtcctaattctccccgctctctcatcag-atcttatttagaaacaaatgagaaaaaaaaaacg---attatttgctgaacgacgatcattttattttacctaac
||| || | | | || | | || ||| | || || | | || || || |||||||||||||||||||||||||||||||| ||||| |||| | |||| | || | ||| || | | || ||| | | | | | || || || | | ||||
-GCAAGAATCCGGCAGCGCGATGATGCGCACGCTCCAGCTGGGATCGCTCTTCGGATTGTGGTACCTCTTCAACATCTACTTCAACATCTATAACAAGCAGgcattgtttcttctcgttttcttttctccaccatagctaggatcttttcttgttttctccatgcatgctactttctaactagaacttatttctcag--------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|19452481|gb|BM953891.1|BM953891EST: TTGGCTTATGGTACCTCTTCAACATCTACTTCAACATCTACAACAAACAG GTGTTGAAGGCGTTTCATTATCCGGTAACTGTGACTGTTGTTCAGTTTGCC
genomic: TTGGCTTATGGTACCTCTTCAACATCTACTTCAACATCTACAACAAACAGgtcctaattc ... ttgtttgcagGTGTTGAAGGCGTTTCATTATCCGGTAACTGTGACTGTTGTTCAGTTTGCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGCACCCGTCGAAAACCCGCTCTTCAAAACTCTCGAACTCGGCGCCTTGTTTGGCTTATGGTACCTCTTCAACATCTACTTCAACATCTACAACAAACAGgtcctaattctccccgctctctcatcagatcttatttagaaacaaatgagaaaaaaaaaacgattatttgctgaacgacgatcattttattttacctaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttctccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaaaaa