Sequence
atgc intronic sequence ATGC exonic sequenceCTATTGCAAAGAAGAAATATGCACCAGACCTACTGATTGTGATATCTCCTATATATATTTGGCTGGGGTTTATGTCTTTGCAGCCACACAAAGAAGAAAGgtctggctaaatttttacctggtcttctgttacaaatttaatcatatgatgctatttgagacaaacacttttattcacttgcacaatgcacacacaatgt...
Basic information
species | Glycine max |
transcript | GLYMA12G35830.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G35830.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os01g11070.1 (Oryza sativa), 5'ss of exon 5
CTATTGCAAAGAAGAAATATGCACCAGACCTACTGATTGTGATATCTCCTATATATATTTGGCTGGGGTTTATGTCTTTGCAGCCACACAAAGAAGAAAGgt------ctggc--taaatttttacctggtcttctgttacaaatttaat-catatgatgct-----atttgagacaaac-acttttattcacttgcacaatgcacacacaatgt
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CATTTGCAAGGAAGAAATATGTCCCAGATCTATTGATAGTTGTATCTCCTGTCTACATTTGGTTGGCTTTCATGTCCTTGCAGGCACACAAAGAAGAAAGgtaatcatctgaatgtaaatattaacttgtttatcagttgagtatgcaatatatataagatttattaatctgagtgaaacgatttttctctgcataaaca---------------
upper sequence: GLYMA12G35830.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G051262_T01 (Zea mays), 5'ss of exon 5
CTATTGCAAAGAAGAAATATGCACCAGACCTACTGATTGTGATATCTCCTATATATATTTGGCTGGGGTTTATGTCTTTGCAGCCACACAAAGAAGAAAGgtctggctaaattttt--acctggtcttctg-----ttacaaatttaatcatatgatgctatttgagacaaacacttttattcacttgcacaatgcacacacaatgt
| |||||| ||||||||||| || || || ||||| || | |||||| | ||||| ||| ||| || |||||||||||| |||||||||||||||||| | ||||| | || | |||| || | | | | ||| || || | || | | ||| | || | | |||| | |||
CATTTGCAAGAAAGAAATATGCTCCTGATCTCCTGATAGTTGTCTCTCCTGTCTATATCTGGTTGGCTTTCATGTCTTTGCAGGCACACAAAGAAGAAAGgtaagaaggaatttcacaatatgcacatctgatcagttgaacactggagcatgcaatataatataggaaagagtcttcttttgatcttttt--tgcaga-aca----
upper sequence: GLYMA12G35830.1 (Glycine max), 5'ss of exon 2
lower sequence: AT1G16900.1 (Arabidopsis thaliana), 5'ss of exon 5
CTATTGCAAAGAAGAAATATGCACCAGACCTACTGATTGTGATATCTCCTATATATATTTGGCTGGGGTTTATGTCTTTGCAGCCACACAAAGAAGAAAGgt--ctggctaaa--tttttacctggtcttctgttacaaatttaatcatatgatgctat----ttgagacaaacacttttatt-cacttgcacaatgc-----------acacacaatgt---------------------------
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CTGTTATCAGAAGGAAGTATGACCGTGCCCTGCTGGTTGTGATTTCCCCGATGTATATTTGGCTGGCGTTCATGTCACTTCAGCCCCACAAAGAAGAAAGgtgattttctaagatctttcatcttgtaattttttgagcattcgtatggtggcttctatatcgttgaggaaaccagttttatgatacttttacaaaatcacggtattcaacaaacaatgtttttgattgtcaattaattgactgcag
upper sequence: GLYMA12G35830.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv19s0014g01410.t01 (Vitis vinifera), 5'ss of exon 5
CTATTGCAAAGAAGAAATATGCACCAGACCTACTGATTGTGATATCTCCTATATATATTTGGCTGGGGTTTATGTCTTTGCAGCCACACAAAGAAGAAAGgtctggctaaattt-ttacctggtcttctgtt--acaaatttaatcatatgatgctatttgagacaaacacttttattcacttgcacaatgcacacacaatgt
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CCATTGTGAGGAAGAAATATGTTCCAGACCTGCTAGTTGTCATTTCACCTCTTTATATTTGGCTGGGATTTATGTCTTTACAACCACACAAAGAAGAAAGgtataactatttctgtcattttcttaactattctgcagacttattaatgtcacttctttaaaaaaatgaattcctgccatattttccttttaaagaatga---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|192332079|gb|FK024567.1|FK024567EST: ATATATATTTGGCTGGGGTTTATGTCTTTGCAGCCACACAAAGAAGAAAG GTTCCTTTATCCAATATATCCACTTATTTGTGTAGCTGCTTCAGCTGTCAT
genomic: ATATATATTTGGCTGGGGTTTATGTCTTTGCAGCCACACAAAGAAGAAAGgtctggctaa ... gtgcatgcagGTTCCTTTATCCAATATATCCACTTATTTGTGTAGCTGCTTCAGCTGTCAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTATTGCAAAGAAGAAATATGCACCAGACCTACTGATTGTGATATCTCCTATATATATTTGGCTGGGGTTTATGTCTTTGCAGCCACACAAAGAAGAAAGgtctggctaaatttttacctggtcttctgttacaaatttaatcatatgatgctatttgagacaaacacttttattcacttgcacaatgcacacacaatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA