Sequence
atgc intronic sequence ATGC exonic sequenceTGATCGTGGACGGTTCACTGAAGTGAAGAGATCTGTGGTTGATAAAAATCTTGGACCTCTGGTGAAGACTGTGATGACTCGGTGCATTCAATGTACAAGGtcaatattggactaaactttcttttttccccctgtaaacctgattattgtgaatgcagattttattaaacatgctacacattggaaatcatattatgacttatttcttagaaaaatatcaattactttaatctgagtgcctgaaagggctctggtggaatgtttctttcttccaacaga
Basic information
species | Glycine max |
transcript | GLYMA18G04730.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G04730.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os03g50540.1 (Oryza sativa), 5'ss of exon 2
-TGATCGTGGACGGTTCACTGAAGTGAAGAGATCTGTGGTTGATAAAAATCTTGGACCTCTGGTGAAGACTGTGATGACTCGGTGCATTCAATGTACAAGGtcaatattggactaaactttcttttttccccctgtaaacctgattattgtgaatgcagattttattaaacatgctacacattggaaatcatattatgacttatttcttagaaaaatatcaattactttaatctgagtgcctgaaagggctctggtggaatgtttctttcttccaacaga
||| ||||| ||||||||||| ||||| | || || || || || ||| | || || |||||||||| |||||||| || ||||| ||||||||||||| ||| || ||| |||| | ||| | ||| ||| | | || | | | || | || | | | || || | || |
CTGACCGTGGTCGGTTCACTGAGATGAAGCGGTCCGTTGTGGACAAGAATTTGGGCCCATTGGTGAAGACAGTGATGACCCGTTGCATCCAATGTACAAGgt-aatgtt--------tttttttttgcttttcagtagatttga-----atgagtatccacttaaagaggtttactgc-tgttcagttttgtctattgtctgctccctctgcttc-----------------------------------------------------------------
upper sequence: GLYMA18G04730.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G126038_T01 (Zea mays), 5'ss of exon 2
-TGATCGTGGACGGTTCACTGAAGTGAAGAGATCTGTGGTTGATAAAAATCTTGGACCTCTGGTGAAGACTGTGATGACTCGGTGCATTCAATGTACAAGGtcaatattggactaaactttcttttttccccctgtaaacctgattattgtgaatgcag--attttattaaacatgctacacat-tggaaatcatattatgacttatttcttagaaaaatatcaattactttaatctgagtgcctgaaagggctctggtggaatgtttctttcttccaacaga
||| || || ||||||||||| ||||| | || || || || || ||| | || || |||| ||||| ||||||||||| ||||| ||||||||||||| ||| | || || ||| | | | | ||| || | | ||| ||||| | | ||| | || ||| | | | ||| |||||
CTGACCGCGGTCGGTTCACTGAGATGAAGCGTTCAGTTGTGGACAAGAATTTGGGTCCCTTGGTTAAGACAGTGATGACTCGTTGCATCCAATGTACAAGgt-aatg----------cctttttgcttcttgataaatat-taattgttatcgtttcaggtattttttcaggcatatcctgtttgtgtgtatcctgcaagggcttcattctt-----------------------------------------------------------------------
upper sequence: GLYMA18G04730.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G145854_T01 (Zea mays), 5'ss of exon 2
-TGATCGTGGACGGTTCACTGAAGTGAAGAGATCTGTGGTTGATAAAAATCTTGGACCTCTGGTGAAGACTGTGATGACTCGGTGCATTCAATGTACAAGGtcaatattggactaaactttcttttttccccctgtaaacctgattattgtgaatgcagat--tttattaaacatgctacacattggaaatcatattatgacttatttcttagaaaaatatcaattactttaatctgagtgcctgaaagggctctggtggaatgtttctttcttccaacaga
||| || || ||||||||||| ||||| | || || || || || ||||| || || |||| ||||| ||||||||||| ||||| ||||||||||||| | |||| || || | || || ||| || | | ||| | ||| | | | | | | |||| || | |
CTGACCGCGGTCGGTTCACTGAGATGAAGCGGTCAGTTGTGGACAAGAATCTGGGTCCCTTGGTTAAGACAGTGATGACTCGTTGCATCCAATGTACAAGgtgat-----------gcttttttgcttgttgataaaagtct-attgttcttgtttcaggtaatttttcaggcctatcctgtttatatatgtgtattctgcagggtcattct----------------------------------------------------------------------
upper sequence: GLYMA18G04730.1 (Glycine max), 5'ss of exon 2
lower sequence: AT5G37510.2 (Arabidopsis thaliana), 5'ss of exon 2
-TGATCGTGGACGGTTCACTGAAGTGAAGAGATCTGTGGTTGATAAAAATCTTGGACCTCTGGTGAAGACTGTGATGACTCGGTGCATTCAATGTACAAGGtcaatattggactaaactttcttttttccccctgtaaacctgattattgtgaatgcag-attttattaaacatgctacacattggaaatcatattatgacttatttcttagaaaaatatcaattactttaatctgagtgcctgaaagggctctggtggaatgtttctttcttccaacaga
|||| | ||||| || ||||| |||| |||||||| |||||||| |||||||| ||||| ||||||||||| ||||||||||| || || |||||||||| | || | | || ||| | ||| | | | | | || | || | || | | | | || ||| | || |
CTGATAGAGGACGTTTTACTGAGATGAAAAGATCTGTTGTTGATAAGAATCTTGGTCCTCTTGTGAAGACTGTTATGACTCGGTGTATCCAGTGTACAAGgttacta----atatagtttgcttatagtgtgatgttttagttaatgtgatagatacgctatcctgttgattaggttttgtatgtataatgtttttgtag---------------------------------------------------------------------------------
upper sequence: GLYMA18G04730.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv14s0006g02020.t01 (Vitis vinifera), 5'ss of exon 2
-TGATCGTGGACGGTTCACTGAAGTGAAGAGATCTGTGGTTGATAAAAATCTTGGACCTCTGGTGAAGACTGTGATGACTCGGTGCATTCAATGTACAAGGtcaatattggactaaactttcttttttccccctgtaaacctgattattgtgaatgcagattttattaaacatgctacacattggaaatcatattatgacttatttcttagaaaaatatcaattactttaatctgagtgcctgaaagggctctggtggaatgtttctttcttccaacaga
|||||| || || |||||||| ||||| |||||||||||||||| |||||||| ||| |||| ||||||||||||||||| |||||||| |||||| || ||| | | ||| | | | || || |||| | ||||| || | | || | || | || | ||| | || || || | ||
CTGATCGCGGCCGTTTCACTGACATGAAGCGATCTGTGGTTGATAAGAATCTTGGCCCTTTGGTTAAGACTGTGATGACTCGTTGCATTCAGTGTACACGg----tatgaatgtgtgatcacttctcccttgttttattact-attaatatgaatat---ttcaagttaagaaactttggtct--aagtgggatt-ttacctaattttcag---------------------------------------------------------------------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|254341815|gb|GR852952.1|GR852952EST: TTGGACCTCTGGTGAAGACTGTGATGACTCGGTGCATTCAATGTACAAGA TGTGTTAGATTTGCAACAGAGGTTGCTGGGGTTCAGGATCTTGGCATGTTA
genomic: TTGGACCTCTGGTGAAGACTGTGATGACTCGGTGCATTCAATGTACAAGGtcaatattgg ... ttccaacagaTGTGTTAGATTTGCAACAGAGGTTGCTGGGGTTCAGGATCTTGGCATGTTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGATCGTGGACGGTTCACTGAAGTGAAGAGATCTGTGGTTGATAAAAATCTTGGACCTCTGGTGAAGACTGTGATGACTCGGTGCATTCAATGTACAAGGtcaatattggactaaactttcttttttccccctgtaaacctgattattgtgaatgcagattttattaaacatgctacacattggaaatcatattatgacttatttcttagaaaaatatcaattactttaatctgagtgcctgaaagggctctggtggaatgtttctttcttccaacaga
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