Sequence
atgc intronic sequence ATGC exonic sequenceTTGTTTATCTCTCCAGATCATCAAAGTATACCGGAAACTATGTGATGCATCAAACACTTTCTACTTACTATTACCTTATGAAGCCTTCTTTGGCCCCCAGgtatatatacattgtttatgtagttaagctctgtcagtctttattcttgccattattctttgaggatatagagatctgaattttatgttgacagccgttg...
Basic information
species | Glycine max |
transcript | GLYMA15G20400.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G20400.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os04g24180.1 (Oryza sativa), 5'ss of exon 6
TTGTTTATCTCTCCAGATCATCAAAGTATACCGGAAACTATGTGATGCATCAAACACTTTCTACTTACTATTACCTTATGAAGCCTTCTTTGGCCCCCAGgtatatatacattgtttatgtagttaagctctgtca----gtctttattcttgccattattctttgaggatatagagatctgaattttatgttgacagccgttg--
|| ||||| | || || ||||||||||| |||||||| ||||| ||||||||||| || || ||||| || ||| | ||||||||||| |||| || |||||| || | | || ||| || ||| || | || ||| | | || || | | | | | | || ||
TTATTTATTTGTCAAGGTCATCAAAGTACACCGGAAATTATGTCATGCATCAAACTCTGTCCACTTATTACTACTTCATGAAGCCTTCACTGGCTCCAAGgtat-----cagcgctaataagacctcattctaacatatggtcatttcttgtgaggttaacatgttagcatgctggaacatcatgtaggatgtagca-ttactgag
upper sequence: GLYMA15G20400.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G007871_T02 (Zea mays), 5'ss of exon 5
TTGTTTATCTCTCCAGATCATCAAAGTATACCGGAAACTATGTGATGCATCAAACACTTTCTACTTACTATTACCTTATGAAGCCTTCTTTGGCCCCCAGgtatatatacattgtttatgtagttaagctctgtcagtctttattcttgccatt---attctttgaggatatagagatctgaattttatgttgacagccgttg
|| ||||| | || ||||||||||| ||||| ||||||||||| ||||||||||| | || |||||||| ||| |||||||||| ||| | || || |||||| | | |||| || | | |||| | | || || ||| || || | ||| | | | || | | || | | |
TTATTTATTTGTCAAGATCATCAAAATATACTGGAAACTATGTCATGCATCAAACTTTGTCCACTTACTACTACTTTATGAAGCCATCTCTTGCTCCAAGgtatgaacttgc-gaacatgtcatttaacactgttacttttggaatttaatatttgtgtttccctagcacatattg-tttaaagtgcaagtgctctgtatct-
upper sequence: GLYMA15G20400.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G167868_T01 (Zea mays), 5'ss of exon 5
TTGTTTATCTCTCCAGATCATCAAAGTATACCGGAAACTATGTGATGCATCAAACACTTTCTACTTACTATTACCTTATGAAGCCTTCTTTGGCCCCCAGgtatatatacattgtttatgtagttaagctctgtca--gtctttattcttgcc-attattctttgaggatatagagatctgaattttatgttgacagccgttg
|| ||||| | || ||||| ||||| ||||| ||||||||||| ||||||||||| || || |||||||| ||| |||||||||| ||| | || || |||||| | | | | | || | | ||||| | ||| | ||| || | || ||| | | || | | | |||| | |
TTATTTATTTGTCAAGATCGTCAAAATATACTGGAAACTATGTCATGCATCAAACTCTGTCCACTTACTACTACTTTATGAAGCCATCTCTTGCTCCAAGgtatgatcatac-gaacacatcatttaacattgtcataatatttgtgcttccctagcatgtcttgtttaagtggaagttctttgtatctgttttttgaatt--
upper sequence: GLYMA15G20400.1 (Glycine max), 5'ss of exon 6
lower sequence: AT1G79940.3 (Arabidopsis thaliana), 5'ss of exon 6
TTGTTTATCTCTCCAGATCATCAAAGTATACCGGAAACTATGTGATGCATCAAACACTTTCTACTTACTATTACCTTATGAAGCCTTCTTTGGCCCCCAGgtatatatacat---tgtttatgtagttaagctctgtcagtctttattcttgccattattctttgaggatatagagatctgaattttatgttg-acagccgttg--------
|| | |||||||| || |||||||||||||| || ||||| || |||||||||||||| || | || ||||| || ||||| || ||| ||||||| |||||||| || ||| | | ||| || | || | | || || || || | | | || || ||||| | | ||
TTATATATCTCTCGAGGTCATCAAAGTATACTGGGAACTACGTTATGCATCAAACACTCTCCGCATATTATTATCTAATGAAACCCTCTCTGGCCCCAAGgtatattcactcatacccatatacattcaagtgatgcta---ttggtgcatgacaa-atgggctgtgttttcgtttgtttgtatgacatgttttaaaatttttattgtccag
upper sequence: GLYMA15G20400.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv16s0050g01460.t01 (Vitis vinifera), 5'ss of exon 5
TTGTTTATCTCTCCAGATCATCAAAGTATACCGGAAACTATGTGATGCATCAAACACTTTCTACTTACTATTACCTTATGAAGCCTTCTTTGGCCCCCAGgtatatatacattgtttatgtagttaagctctgtcagtctttattcttgccattattctttgaggatatagagatctgaa---ttttatgttga--cagccgttg
|||||||||| || |||||| |||| ||||| || |||||||| ||||||||||| || ||||||||||||||| | ||||| |||||||||||||| |||||| ||| || |||| | || || ||| ||||||||| | | | ||||| || | | |||| | || ||||| |
TTGTTTATCTATCAAGATCAGCAAAATATACTGGGAACTATGTCATGCATCAAACTCTGTCTACTTACTATTACTTCATGAAACCTTCTTTGGCCCCAAGgtat-tatgt-ttattta-atttttttcctaattcataatttattcttaaagaatatttccactcaagtagagtcttggaaggtgttatttggatacagcctt--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|27426194|gb|CA937714.1|CA937714EST: CAAACACTTTCTACTTACTATTACCTTATGAAGCCTTCTTTGGCCCCCAG CAAAGTCATGGATGTCTTCATCAAGGCTGCTGAATATATGGAAATTCCAGT
genomic: CAAACACTTTCTACTTACTATTACCTTATGAAGCCTTCTTTGGCCCCCAGgtatatatac ... tgtggtacagCAAAGTCATGGATGTCTTCATCAAGGCTGCTGAATATATGGAAATTCCAGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTGTTTATCTCTCCAGATCATCAAAGTATACCGGAAACTATGTGATGCATCAAACACTTTCTACTTACTATTACCTTATGAAGCCTTCTTTGGCCCCCAGgtatatatacattgtttatgtagttaagctctgtcagtctttattcttgccattattctttgaggatatagagatctgaattttatgttgacagccgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC