Sequence
atgc intronic sequence ATGC exonic sequenceTATAGAGCTCCAGAACTTATATTTGGTGCAACAGAATACACAACTGCTATTGATATTTGGTCTGCTGGTTGTGTGTTGGCTGAGCTTCTTGTAGGACATGtgagaatttatattatctctttgtctctccatctcatatgtagtgggaatttctatttctttcgtaaaaattgcatttccattaagttcactgtatgaga...
Basic information
species | Glycine max |
transcript | GLYMA18G45960.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G45960.1 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os10g37740.1 (Oryza sativa), 5'ss of exon 8
-TATAGAGCTCCAGAACTTATATTTGGTGCAACAGAATACACAACTGCTATTGATATTTGGTCTGCTGGTTGTGTGTTGGCTGAGCTTCTTGTAGGACATGtg-agaat--ttatattatctctttgtctctcca-tctcatatgtagtgggaatttctatttctttcgtaaaaattgcatttccattaagttcactgtatgaga
||||| ||||| ||||| |||||||| || ||||| || || || || |||||||| ||||||| ||||||||| | ||||||||||| | || || || ||||| || || | ||| | | | || | || | | || | || || || || ||| || ||| | | ||
TTATAGGGCTCCTGAACTAATATTTGGAGCTACAGAGTATACCACAGCAATTGATATCTGGTCTGTTGGTTGTGTACTAGCTGAGCTTCTGATTGGTCAGgtatagaatcattctagcagctcagtttttttctagtcaagttcatgacccgaggatatacttgattgaataattttgtatcgaacttactgttatctta-----
upper sequence: GLYMA18G45960.1 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G109624_T01 (Zea mays), 5'ss of exon 8
-TATAGAGCTCCAGAACTTATATTTGGTGCAACAGAATACACAACTGCTATTGATATTTGGTCTGCTGGTTGTGTGTTGGCTGAGCTTCTTGTAGGACATGtg-agaattt--atattatctctttgtctc---tccatctcatatgtagtgggaatttctatttctttcgtaaaaatt--gcatttccattaagttcactgtatgaga
||||| ||||| ||||| |||||||| || || || || || ||||| || ||||| ||||||| ||| ||||| ||||||||||||| | || || || || || | || || ||| || |||| || || | | || |||| ||| ||| | | | ||| || || || ||
TTATAGGGCTCCTGAACTAATATTTGGAGCTACGGAGTATACCACTGCAATCGATATCTGGTCTGTTGGCTGTGTAGTGGCTGAGCTTCTGATTGGTCAGgtataggatctcaatcctacaggtttaccttgcttccagctgat-tattatgccaattgctaaccattttctgagagggaagcaattttgttttac-cattg-------
upper sequence: GLYMA18G45960.1 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G131853_T01 (Zea mays), 5'ss of exon 8
-TATAGAGCTCCAGAACTTATATTTGGTGCAACAGAATACACAACTGCTATTGATATTTGGTCTGCTGGTTGTGTGTTGGCTGAGCTTCTTGTAGGACATGtg-agaattt--atattatctctttgtctctccatctcatatgtagtgggaatttctatttctttcgtaaaaattgcatttccattaagttcactgtatgaga
||||| ||||| ||||| |||||||| || || || || || ||||| || ||||| ||||||| ||| ||||| ||||||||||||| | || || || || || | | || || || || || || ||| | | | |||| | | || || ||| | || || |||| |
TTATAGGGCTCCTGAACTAATATTTGGAGCTACGGAGTATACCACTGCGATCGATATCTGGTCTGTTGGCTGTGTAGTGGCTGAGCTTCTGATTGGTCAGgtacaggatctcagtcctacaagttcacctttctttcagatgagtattatgc-caaccattttctgtgagggaaatgattttgctgta---ccattgtaaaatt
upper sequence: GLYMA18G45960.1 (Glycine max), 5'ss of exon 8
lower sequence: AT3G61160.2 (Arabidopsis thaliana), 5'ss of exon 8
-TATAGAGCTCCAGAACTTATATTTGGTGCAACAGAATACACAACTGCTATTGATATTTGGTCTGCTGGTTGTGTGTTGGCTGAGCTTCTTGTAGGACATGtgagaatttatattatctctttgtctctccatctcatatgtagtgggaatttctatttctttcgtaaaaattgcatttccattaagttcactgtatgaga
|| |||||||| ||||| |||||||| ||||| |||||||||| ||| || ||||| ||||||| |||||||| ||||||||||| || | |||||||| |||| | | ||||| || | | | | | | | || |||| || | | | | ||| | |||| | || |
TTACAGAGCTCCTGAACTCATATTTGGAGCAACCGAATACACAAGTGCGATCGATATGTGGTCTGTAGGTTGTGTCATGGCTGAGCTTTTTCTTGGACATgtaagaaa--aaagtatctggttctgagttttttcaacttttgatttgaga---catttgctttgaacctctctcttttgctttaaatgt-ctacag----
upper sequence: GLYMA18G45960.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv15s0048g02010.t01 (Vitis vinifera), 5'ss of exon 8
-TATAGAGCTCCAGAACTTATATTTGGTGCAACAGAATACACAACTGCTATTGATATTTGGTCTGCTGGTTGTGTGTTGGCTGAGCTTCTTGTAGGACATGtgagaatttatattatctctttgtctctccatctcatatgtagtgggaatttctatttctttcgtaaaaattgcat-ttccattaagttcactgtatgaga----------
||||| ||||||||||| || ||||| || |||||||| |||||||| |||||||| |||||||| ||||| || |||||||||||||| | || || ||| | ||||| | | |||| ||| | || | | ||||| || || || ||| ||| || ||| ||||
TTATAGGGCTCCAGAACTGATCTTTGGGGCTACAGAATATACAACTGCCATTGATATGTGGTCTGCAGGTTGCGTTGTGGCTGAGCTTCTTCTTGGCCAGgtggg--tttatgc---------atgtgaatatcttatactgatgaaatatgctgaactaacctttaaaagtttcacgtttcataaagatc-ttgttggagatttacactta
upper sequence: GLYMA18G45960.1 (Glycine max), 5'ss of exon 8
lower sequence: EFJ07923 (Selaginella moellendorffii), 5'ss of exon 8
-TATAGAGCTCCAGAACTTATATTTGGTGCAACAGAATACACAACTGCTATTGATATTTGGTCTGCTGGTTGTGTGTTGGCTGAGCTTCTTGTAGGACATGtgagaatttatattatctctttgtctctccatctcatatgtagtgggaatttctatttctttcgtaaaaattgcatttccattaagttcactgtatgaga
|| | ||||| |||||||||||||||||||| || |||||||| || || || || ||||| |||| || || |||||||| | ||| | || || || | |||| | | ||| | || ||| | | || | | | | || | | |||||||| | |
TTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgt-----tgtata------cctcgtccttgcaactcttccattatgccactcaccgtctcatcaat--------catttccactgtgcag-----------
upper sequence: GLYMA18G45960.1 (Glycine max), 5'ss of exon 8
lower sequence: EFJ07216 (Selaginella moellendorffii), 5'ss of exon 8
-TATAGAGCTCCAGAACTTATATTTGGTGCAACAGAATACACAACTGCTATTGATATTTGGTCTGCTGGTTGTGTGTTGGCTGAGCTTCTTGTAGGACATGtgagaatttatattatctctttgtctctccatctcatatgtagtgggaatttctatttctttcgtaaaaattgcatttccattaagttcactgtatgaga
|| | ||||| |||||||||||||||||||| || |||||||| || || || || ||||| |||| || || |||||||| | ||| | || || || | |||| | | ||| | || ||| | | || | | | | || | | |||||||| | |
CTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgt-----tgtata------cctcgtccttgcaactcttccattatgccactcaccgtctcatcaat--------catttccactgtgcag-----------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|151396011|gb|EV265888.1|EV265888EST: TGATATTTGGTCTGCTGGTTGTGTGTTGGCTGAGCTTCTTGTAGGACATC CAATGTTTCCCGGAGAGAGTGGGGTTGATCAATTGGTAGAGATCATTAAGA
genomic: TGATATTTGGTCTGCTGGTTGTGTGTTGGCTGAGCTTCTTGTAGGACATGtgagaattta ... tatttgcagcCAATGTTTCCCGGAGAGAGTGGGGTTGATCAATTGGTAGAGATCATTAAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TATAGAGCTCCAGAACTTATATTTGGTGCAACAGAATACACAACTGCTATTGATATTTGGTCTGCTGGTTGTGTGTTGGCTGAGCTTCTTGTAGGACATGtgagaatttatattatctctttgtctctccatctcatatgtagtgggaatttctatttctttcgtaaaaattgcatttccattaagttcactgtatgaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tctccatc