Sequence
atgc intronic sequence ATGC exonic sequence...agaaagcaactaagattatcattcaatgaatgttttgttattcatattcaaattatgaaaagtgaaattaccccaatgactcaatatgtaatattcacagGGAATTGAAATGCTCTCTCTTGGGTCTTTCAAGACTGGTGCTATTCTCTTG
Basic information
species | Glycine max |
transcript | GLYMA14G21190.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G21190.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os02g02530.3 (Oryza sativa), 3'ss of exon 5
--------------------------------------------agaaagcaactaagatt--atcattcaatgaatgttttgttattcatattcaaattatgaaaagtgaaattaccccaatgactcaatatgtaatattcacagGGAATTGAAATGCTCTCTCTTGGGTCTTTCAAGACTGGTGCTATTCTCTTG
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gtatgcttttgtgttattttgagatataaggttaatatgcattattgaaataactatggttcaagagcttcacaaatatgttctgttttcctcccaaactttacttggagagaa-acctacttgattctctttat----cttacagGGAATTGAGATGCTATCACTTGGATCATTCAAAACTGGTGCTATTCTCTTG
upper sequence: GLYMA14G21190.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os05g36070.2 (Oryza sativa), 3'ss of exon 6
-----------------------------------agaaagca--actaagattatcattcaatgaatgttttgt---tattcatattcaaattatgaaaagtgaaattaccccaatgactcaatatgtaatattcacagGGAATTGAAATGCTCTCTCTTGGGTCTTTCAAGACTGGTGCTATTCTCTTG
| | ||| | ||| | || | ||||| |||| || ||| | || | || | ||| ||| || | | | | |||||||| || ||||| || ||||| || ||||| ||||||||||||||||||
gtttgatcttattgctatttttgagatataatgttaatatgcatgagtaaattaattacggtatgaaagtttcgtagatatgttttttttcccaccaacttgtagagaaacctgaatccctgattctctttgccatccagGGAATCGAGATGCTATCACTTGGATCATTCAAAACTGGTGCTATTCTCTTG
upper sequence: GLYMA14G21190.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv06s0009g03520.t01 (Vitis vinifera), 3'ss of exon 6
agaaagcaactaagattatcattcaatgaatgttttgttattcatattcaaattatgaaaagtgaaat-taccccaatgactcaatatgtaat--attcacagGGAATTGAAATGCTCTCTCTTGGGTCTTTCAAGACTGGTGCTATTCTCTTG
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-ttatgttataacaatttctgtt--atcctcatttgtttgtttgagctatagtcatctgcaatgcactgttaatctgtattttattttcttttccatttgcagGGTATTGAAATGCTCTCACTTGGGTCTTTTAAAACTGGTGCCATCCTTTTGMapped 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|192334327|gb|FK025532.1|FK025532EST: CTTGCTTTCTGTATACAG GGGATTGAAATGCTCTCTCTTGGGTCTTTCAAGACTGGTGCTATTCTCTTG
genomic: CTTGCTTTCTGTATACAGgtttggtgct ... atattcacagGGAATTGAAATGCTCTCTCTTGGGTCTTTCAAGACTGGTGCTATTCTCTTG
EST:
gi|208136700|gb|GD939674.1|GD939674EST: CTAGCAAATAATATATTGGGTCTTGCTTTCTGTATACAG GGAATTGAAATGCTCTCTCTTGGGTCTTTCAAGACTGGTGCTATTCTCTTG
genomic: CTAGCAAATAATATATTGGGTCTTGCTTTCTGTATACAGgtttggtgct ... atattcacagGGAATTGAAATGCTCTCTCTTGGGTCTTTCAAGACTGGTGCTATTCTCTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attcaaattatgaaaagtgaaattaccccaatgactcaatatgtaatattcacagGGAATTGAAATGCTCTCTCTTGGGTCTTTCAAGACTGGTGCTATTCTCTTG
tcaatatgtaatatt TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agaaagcaactaagattatcattcaatgaatgttttgttattcatattcaaattatgaaaagtgaaattaccccaatgactcaatatgtaatattcacagGGAATTGAAATGCTCTCTCTTGGGTCTTTCAAGACTGGTGCTATTCTCTTG
- - - - - - - - - -cattcaa
- - - - - - - - - - - - - - - tgttttg