Sequence
atgc intronic sequence ATGC exonic sequenceATATGTTGTTATGGAGTATGTGAAATCTGGAGAGCTCTTTGATTACATAGTAGAGAAGGGTCGGCTGCAAGAGGATGAAGCCCGTCATTTTTTTCAGCAGgtataatttgtaatatttttgtgtgcttcagagatttgtgcttgccacattattgaatccaacttatgttatgaaaacagataatttctggtgtggagtactgtcacag
Basic information
species | Glycine max |
transcript | GLYMA13G05700.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G05700.2 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os05g45420.3 (Oryza sativa), 5'ss of exon 3
ATATGTTGTTATGGAGTATGTGAAATCTGGAGAGCTCTTTGATTACATAGTAGAGAAGGGTCGGCTGCAAGAGGATGAAGCCCGTCATTTTTTTCAGCAGgtataatttgtaatatttttgtgtgcttcagagatttgtgcttgccacattattgaatccaacttatgttatgaaaacagataatttctggtgtggagtactgtcacag
|||||||||||||||||||| |||||||||||| | ||||||||||| || |||||||| | ||||||||||| ||||| || | ||||| ||||||||| |||||| ||||| || | | ||| | ||| | ||||| | | | | | | || |||| || || | |||||
TTATGTTGTTATGGAGTATGTCAAATCTGGAGAGTTGTTTGATTACATCGTTGAGAAGGGAAGACTGCAAGAGGAAGAAGCTCGACGCTTTTTCCAGCAGgtaggctttgtaccattttcctggatt-----ggtttttaaggaatacactcagtaatcccatctctagttagggtttgcacaagttctaa-atgcagcaa-gtcac--
upper sequence: GLYMA13G05700.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G077278_T01 (Zea mays), 5'ss of exon 3
ATATGTTGTTATGGAGTATGTGAAATCTGGAGAGCTCTTTGATTACATAGTAGAGAAGGGTCGGCTGCAAGAGGATGAAGCCCGTCATTTTTTTCAGCAGgtataatttgta-atatttttgtgt--gcttcagagatttgtgcttgccacattattgaatccaacttatgttatgaaaacagataatttctggtgtggagtactgtcacag
| |||||||||||||||||| |||||||||||| | ||||||||||| || |||||||| |||| || || || |||||||| || |||||||||||||| || | ||||| | ||| | || ||||| || |||| | ||||| || | || | || || | | | |
CTGTGTTGTTATGGAGTATGTTAAATCTGGAGAGTTGTTTGATTACATCGTTGAGAAGGGAAGGCTACACGAAGAGGAAGCCCGACACTTTTTTCAGCAGgtggctttcttgcatattactatgttcattccaaagatt---gcacaatgcattgt--aatcc---ttggttcgaagaactgtagtatggttgacataagctgttttg----
upper sequence: GLYMA13G05700.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G180704_T01 (Zea mays), 5'ss of exon 3
ATATGTTGTTATGGAGTATGTGAAATCTGGAGAGCTCTTTGATTACATAGTAGAGAAGGGTCGGCTGCAAGAGGATGAAGCCCGTCATTTTTTTCAGCAGgta----taatttgtaatatttttgtgtgcttcag-------agatttgtgcttgccacattattg--aatccaa-cttatgttatgaaaacagataattt-ctggtgtggagtactgtcacag----------------------
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TTATGTTGTTATGGAGTATGTTAAGTGTGGGGAATTATTTGATTACATTGTTGAGAAAGGTAGGCTGCAGGAGGAAGAGGCTCGCCGTTTCTTCCAACAGgtgataccatttctttctgtttgtttgtgctacaattatgataaacttaggtttacaagaagacagcaaatcaaaacatctgtgatattcttctcaagtgtgcttgtatgtgatagtattctctttcttgccccctcttgatacag
upper sequence: GLYMA13G05700.2 (Glycine max), 5'ss of exon 3
lower sequence: AT3G29160.3 (Arabidopsis thaliana), 5'ss of exon 3
ATATGTTGTTATGGAGTATGTGAAATCTGGAGAGCTCTTTGATTACATAGTAGAGAAGGGTCGGCTGCAAGAGGATGAAGCCCGTCATTTTTTTCAGCAGgtataatttgtaatatttttgtgtgcttcagagatttgt-gcttgccacattat---tgaatccaacttatgttatgaaaacagataatttctggtgtggagtactgtcacag
|||||||| ||||||||||| || |||||||||||||||||||| || || ||||| || | | ||||| ||||| || ||| | ||||| |||||||| | ||| | ||| | ||||| || | || | || ||| | | | |||| || | || || | | |
TTATGTTGTGATGGAGTATGTCAAGTCTGGAGAGCTCTTTGATTATATTGTTGAGAAAGGCAGATTACAAGAAGATGAGGCTCGTAACTTTTTCCAGCAGgtttgttttct----ctttaccataaccagtgtgtttgtagcgtatcatgtcatctttgagtttgagtgttgtt-tgtgtttgactcatatccga-atag-------------
upper sequence: GLYMA13G05700.2 (Glycine max), 5'ss of exon 3
lower sequence: AT3G01090.2 (Arabidopsis thaliana), 5'ss of exon 3
ATATGTTGTTATGGAGTATGTGAAATCTGGAGAGCTCTTTGATTACATAGTAGAGAAGGGTCGGCTGCAAGAGGATGAAGCCCGTCATTTTTTTCAGCAGgtataatttgtaatatttttgtgtgcttcagagatttgtgcttgccacattattgaatccaacttatgttatgaaaacagataatttctggtgtggagtactgtcacag
||| |||| |||||||||||||| ||||| ||||| ||||| || || || ||||||||| | |||| |||||||| || | | |||||||||||||||| ||| || || || | | | || | | | | || || | | || | | |||| || ||| | | |||| ||| || ||
TTATCTTGTCATGGAGTATGTGAACTCTGGTGAGCTATTTGACTATATTGTTGAGAAGGGTAGATTGCAGGAGGATGAGGCGAGGAACTTTTTTCAGCAGgtatgttttt--attttattttat-caacatgtaactttccaagcaaccat-tcgattttatattatatt-tgagagttaagaattagctacttgg--ctttgatgtag
upper sequence: GLYMA13G05700.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv14s0108g01230.t01 (Vitis vinifera), 5'ss of exon 3
ATATGTTGTTATGGAGTATGTGAAATCTGGAGAGCTCTTTGATTACATAGTAGAGAAGGGTCGGCTGCAAGAGGATGAAGCCCGTCATTTTTTTCAGCAGgtataatttgtaatatttttgtgtgcttcagagatttgtgcttgccacattattgaatccaacttatgttatgaaaacagataatttctggtgtggagtactgtcacag--------------
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TTTTGTCGTGATGGAGTATGTGAAGTCTGGAGAGCTTTTTGATTACATTGTAGAGAAGGGCAGGCTACAGGAGGAAGAAGCTCGTAACTTTTTTCAACAGgtagaaattattattttcctatgaaatttgtccccctttttccttcatctctctcaaccgagtcgatagaatgtttgtgaattaaccataaatttacatttggtcaattctttgcctgaacagMapped 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|209717789|gb|BW666062.1|BW666062EST: TAGAGAAGGGTCGGCTGCAAGAGGATGAAGCCCGTCANNNNNNNCAGCAG GAATATGGTGGTTCATAGAGACCTGAAGCCTGAGAATTTACTCTTGGACTC
genomic: TAGAGAAGGGTCGGCTGCAAGAGGATGAAGCCCGTCATTTTTTTCAGCAGgtataatttg ... actgtcacagGAATATGGTGGTTCATAGAGACCTGAAGCCTGAGAATTTACTCTTGGACTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATATGTTGTTATGGAGTATGTGAAATCTGGAGAGCTCTTTGATTACATAGTAGAGAAGGGTCGGCTGCAAGAGGATGAAGCCCGTCATTTTTTTCAGCAGgtataatttgtaatatttttgtgtgcttcagagatttgtgcttgccacattattgaatccaacttatgttatgaaaacagataatttctggtgtggagtactgtcacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC