Sequence
atgc intronic sequence ATGC exonic sequenceAAATATGAAAACTCGTGTGATTGGGTGCCCTAAAACCATTGATGGTGATTTGAAATGCAAAGAAGTTCCCACAAGTTTTGGGTTTGATACAGCATGCAAGgtgaatgaagctatgtagtcagccttctgtgtgcacttattattattattattattatgggaatatcctaccatataatcagggagtttgagagaatcgg...
Basic information
species | Glycine max |
transcript | GLYMA07G39380.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G39380.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os06g13810.1 (Oryza sativa), 5'ss of exon 6
AAATATGAAAACTCGTGTGATTGGGTGCCCTAAAACCATTGATGGTGATTTGAAATGCAAAGAAGTTCCCACAAGTTTTGGGTTTGATACAGCATGCAAGgtgaatgaagctatgtagtcagccttctgtgtgcacttattattattattattattatgggaatatcctaccatataatcagggagtttgagagaatcgg--
|| |||||||||||||| ||||| ||||| || || |||||||| ||| |||||||||| || ||||| ||||| ||||||||||| || || |||||||| | || | | | || || | || ||| || | || | | | | | | | || |||| | | |
GAACATGAAAACTCGTGTCATTGGTTGCCCAAAGACTATTGATGGAGATCTGAAATGCAAGGAGGTTCCAACAAGCTTTGGGTTTGACACTGCTTGCAAGgtatcaggttcttgatccttgtgcatcagttttcaaa-atttcagctaattctactgtag-attgtgaagttttcacccttatgaccttgatgcacttgctc
upper sequence: GLYMA07G39380.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G059151_T01 (Zea mays), 5'ss of exon 6
AAATATGAAAACTCGTGTGATTGGGTGCCCTAAAACCATTGATGGTGATTTGAAATGCAAAGAAGTTCCCACAAGTTTTGGGTTTGATACAGCATGCAAGgtgaatga------------agctatgtagtcagccttctgtgtgcacttattatta-ttattattattatggg--aatatcctaccatata---atcagggagtttgagagaatcgg--------------------------------------------------------------------------
|| |||||||| ||||| ||||| ||||| || || || ||||| ||| ||||||| || || ||||| ||||| ||||| ||||||||||| |||||||| | | ||||||| || || | || | || | |||| || || | ||||| ||| | ||| | | | | || | | |
GAACATGAAAACCCGTGTTATTGGTTGCCCAAAGACTATCGATGGGGATCTGAAATGTAAGGAGGTTCCGACAAGCTTTGGATTTGATACAGCTTGCAAGgtatctaattcttgattgttgactatgtatgaagtct-cagtctaggtttttaattagctacaatggtgatgggctaattgctcaccgcacacctgctcgagcattctttcaatttgaaattaaggcattctacacagatgcatttgaaaacccatcatgaatatatcatgacaaggaatcatatttttcag
upper sequence: GLYMA07G39380.1 (Glycine max), 5'ss of exon 6
lower sequence: AT1G12000.1 (Arabidopsis thaliana), 5'ss of exon 6
AAATATGAAAACTCGTGTGATTGGGTGCCCTAAAACCATTGATGGTGATTTGAAATGCAAAGAAGTTCCCACAAGTTTTGGGTTTGATACAGCATGCAAGgtga-atgaagctatg--tagtcagccttctgtgtgcacttattattattattattattatgggaatatcctaccatataatcagggagtttgagagaatcgg-------------------------------------------------------------------
|| ||||||| || || ||||||||||| || ||||||||||||||||||||||||||||| ||||| || |||||||||||||||||||| |||||||||| || | | || | | || | | || || ||| |||||| ||| | | | ||| | ||||||
GAACTTGAAAACCCGAGTCATTGGGTGCCCCAAGACCATTGATGGTGATTTGAAATGCAAAGAGGTTCCTACTAGTTTTGGGTTTGATACAGCTTGCAAGgtgatattccgttttgatcattttttttttttttatcaattgttacataagttattacataaccaatcctttgctctcgtttcaattcctcgtcaagaatctaatttcttgttccaccagaagaattatgttggaaaaagcctattaaaaacattttaatgcctatgcag
upper sequence: GLYMA07G39380.1 (Glycine max), 5'ss of exon 6
lower sequence: AT4G04040.1 (Arabidopsis thaliana), 5'ss of exon 6
AAATATGAAAACTCGTGTGATTGGGTGCCCTAAAACCATTGATGGTGATTTGAAATGCAAAGAAGTTCCCACAAGTTTTGGGTTTGATACAGCATGCAAGgtgaatgaagctatgtagtcagccttctgtgtgcacttattattattattattattatgggaatatcctaccatataatcagggagtttgagagaatcgg
||| |||||||||| || ||||| |||||||| || || ||||||||||| || |||||||||| ||||| ||||| ||||||||||| || |||||||| | | | || | || || | ||||| | | || |||| | | | | | | | || | | | ||
AAACATGAAAACTCTGGTTATTGGATGCCCTAAGACAATCGATGGTGATTTAAAGAGCAAAGAAGTCCCCACGAGTTTCGGGTTTGATACTGCTTGCAAGgtaagtaacttta-------aaatttatgcata-acttagttgtctttttata-----gaagaccttccattttgtgattatatacatgtag--------
upper sequence: GLYMA07G39380.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv10s0116g00360.t01 (Vitis vinifera), 5'ss of exon 6
AAATATGAAAACTCGTGTGATTGGGTGCCCTAAAACCATTGATGGTGATTTGAAATGCAAAGAAGTTCCCACAAGTTTTGGGTTTGATACAGCATGCAAGgtgaatgaagctatgtagtcagccttctgtgtgcacttattattattattattattatgggaatatcctaccatataatcagggagtttgagagaatcgg--
|||||||||| |||| |||||||| ||||| || |||||||||||||||||||||||||| || ||||||||||||||||| |||||||| ||||||||||||| | | ||| | ||| | || | || || | | || | || | | || | | | ||| | | | | |
AAATATGAAAGCTCGGGTGATTGGATGCCCAAAGACCATTGATGGTGATTTGAAATGCAAGGAGGTTCCCACAAGTTTTGGATTTGATACTGCATGCAAGgtgattctacatatccattcaacgtt-tacacttacaaatctgtgtgtacatcagattgtgcacattttttta-aggatctgaagctaattatgtactgaatMapped 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|7591049|gb|AW706790.1|AW706790EST: TGAAATGCAAAGAAGTTCCCACAAGTTTTGGGTTTGATACAGCATGCAAG ATATATGCAGAAATGATTGGCAATGTTATGATAGATGCTCGATCAACTGGA
genomic: TGAAATGCAAAGAAGTTCCCACAAGTTTTGGGTTTGATACAGCATGCAAGgtgaatgaag ... tttaatgcagATATATGCAGAAATGATTGGCAATGTTATGATAGATGCTCGATCAACTGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAATATGAAAACTCGTGTGATTGGGTGCCCTAAAACCATTGATGGTGATTTGAAATGCAAAGAAGTTCCCACAAGTTTTGGGTTTGATACAGCATGCAAGgtgaatgaagctatgtagtcagccttctgtgtgcacttattattattattattattatgggaatatcctaccatataatcagggagtttgagagaatcgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT