Sequence
atgc intronic sequence ATGC exonic sequenceCAATTGCTACCAATATGGCTGGTCGTGGGACAGATATAATCCTTGGTGGTAATGCTGAATTTATGGCACGCTTGAAGCTTCGTGAGATATTGATGCCAAGgtattatggagctttaattgacagttttattatggagaatttgttcttccatgtacttgttgccttttgattgaatattatttaaaatggcgtttggaag...
Basic information
species | Glycine max |
transcript | GLYMA10G27810.1 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G27810.1 (Glycine max), 5'ss of exon 11
lower sequence: LOC_Os01g21820.1 (Oryza sativa), 5'ss of exon 9
CAATTGCTACCAATATGGCTGGTCGTGGGACAGATATAATCCTTGGTGGTAATGCTGAATTTATGGCACGCTTGAAGCTTCGTGAGATATTGATGCCAAGgtattatggagctttaattgacagttttattatggagaatttgttcttccatgtacttgttgccttttgattgaatatt-atttaaaatggcgtttggaag
||||||| ||||||||||| || ||||| || ||||| || ||||| || ||||| ||||| |||||| | |||||||| |||||||| | ||||||||||||| || || | || | || || | ||| || | || | | |||| ||| | ||| |
CAATTGCCACCAATATGGCGGGACGTGGTACTGATATTATTCTTGGAGGAAATGCAGAATTCATGGCAAGGTTGAAGCTGCGTGAGATGCTTATGCCAAGgtatttaattttattgtcagaatttcaaatgacaccagatatgctgctcc-tgactgttttctaacaaaaacaagtattgattcagttctttatttacttg
upper sequence: GLYMA10G27810.1 (Glycine max), 5'ss of exon 11
lower sequence: AT4G01800.1 (Arabidopsis thaliana), 5'ss of exon 10
CAATTGCTACCAATATGGCTGGTCGTGGGACAGATATAATCCTTGGTGGTAATGCTGAATTTATGGCACGCTTGAAGCTTCGTGAGATATTGATGCCAAGgtattatggagctttaattgacagttttattatggagaatttgttcttcc--atgtacttgttgccttttgattgaatattatttaaaatggcgtttggaag-----------------------------------------------------------------------------------------------
||||||| || |||||||| || ||||||||||| ||||| |||||||| || || || || |||||||| |||||||||||||||||| | ||||| |||||| ||| | ||| | |||| || | | | ||| || | | || || | ||| | | || || |||| | || ||
CAATTGCCACAAATATGGCAGGGCGTGGGACAGACATAATTCTTGGTGGAAACGCAGAGTTCATGGCACGTTTGAAGCTTCGTGAGATACTTATGCCCAGgtatcatgcatgaagcattcaaagtt--atgaataatactttattatcgctaataaacattttgtccacataagaaagatcctttatc-caccattgataaaattgctacaggttatgtactttgtgtaacaaagaaccttggagttcatgatttatttttagctgaagttttgttacgttttaaatgttaccacag
upper sequence: GLYMA10G27810.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv07s0005g02610.t01 (Vitis vinifera), 5'ss of exon 11
CAATTGCTACCAATATGGCTGGTCGTGGGACAGATATAATCCTTGGTGGTAATGCTGAATTTATGGCACGCTTGAAGCTTCGTGAGATATTGATGCCAAGgtattatggagctttaattgacagttttattatggagaatt-tgttcttccatgtacttgttgccttttgattgaatatta---tttaaa---atggcgtttggaag
||||||||||||||||||| |||||||| ||||||||||| |||||||||||||| |||||||||||| | ||||||||||||||||| | |||||||||||| || | ||| | || |||| | || | | || | || || | | ||| || | || || | | || | |||| |||
CAATTGCTACCAATATGGCAGGTCGTGGAACAGATATAATTCTTGGTGGTAATGCAGAATTTATGGCAAGGTTGAAGCTTCGTGAGATGCTTATGCCAAGgtataattgcgctcca--tggaagttgttttgtttaacatcctaacattgtatatgcatgtggcacatagacaactaatcaagctctacatgcatggttttt-----
upper sequence: GLYMA10G27810.1 (Glycine max), 5'ss of exon 11
lower sequence: EFJ15249 (Selaginella moellendorffii), 5'ss of exon 10
CAATTGCTACCAATATGGCTGGTCGTGGGACAGATATAATCCTTGGTGGTAATGCTGAATTTATGGCACGCTTGAAGCTTCGTGAGATATTGATGCCAAGgtattatggagctttaattgacagttttattatggagaatttgttcttccatgtacttgttgccttttgattgaatattatttaaaatggcgtttggaag
| | || || |||||||| ||||||||||||||||| || ||||| || ||||| || |||||| | | || || || ||||| | ||||||| |||| | || | | || | | |||| || ||||| || |
CCTTAGCAACGAATATGGCCGGTCGTGGGACAGATATTATTCTTGGCGGGAATGCCGACTTTATGTCCAAAATCAAACTGCGGGAGATGCTCATGCCAAAgtat----gtactccaga-atctgtgtccgtttggatttcttattcttgactgcag--------------------------------------------
upper sequence: GLYMA10G27810.1 (Glycine max), 5'ss of exon 11
lower sequence: EFJ08380 (Selaginella moellendorffii), 5'ss of exon 10
CAATTGCTACCAATATGGCTGGTCGTGGGACAGATATAATCCTTGGTGGTAATGCTGAATTTATGGCACGCTTGAAGCTTCGTGAGATATTGATGCCAAGgtattatggagctttaattgacagttttattatggagaatttgttcttccatgtacttgttgccttttgattgaatattatttaaaatggcgtttggaag
| | || || |||||||| ||||||||||||||||| || ||||| || ||||| || |||||| | | || || || ||||| | ||||||| ||| | || | | || | |||| || | ||| || |
CCTTAGCAACGAATATGGCCGGTCGTGGGACAGATATTATTCTTGGCGGGAATGCCGACTTTATGTCCAAAATCAAACTGCGGGAGATGCTCATGCCAAAgtac----gtactccaga-atctgtgtccggttggatttcttatccttgactgcag--------------------------------------------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|19934512|gb|BQ079542.1|BQ079542EST: AATGCTGAATTTATGGCACGCTTGAAGCTTCGTGAGATATTGATGCCAAG AGTTGTTAAACCATCTGAAGAAGGCTTTGTATCAATAAAGAAACCTCCTCC
genomic: AATGCTGAATTTATGGCACGCTTGAAGCTTCGTGAGATATTGATGCCAAGgtattatgga ... atgattgcagAGTTGTTAAACCATCTGAAGAAGGCTTTGTATCAATAAAGAAACCTCCTCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CAATTGCTACCAATATGGCTGGTCGTGGGACAGATATAATCCTTGGTGGTAATGCTGAATTTATGGCACGCTTGAAGCTTCGTGAGATATTGATGCCAAGgtattatggagctttaattgacagttttattatggagaatttgttcttccatgtacttgttgccttttgattgaatattatttaaaatggcgtttggaag
- - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC