Sequence
atgc intronic sequence ATGC exonic sequence...tttttccaaaaaagaaaaaaaaacttcttagggatagaagaggttggcttctttccatagtttgctatttttaaagcttgttctgcttgcccattgcaggAGATAAATGAAGAATGGATTTCGGATAAAACCCGCTTTTGTTATGATGGTTTGAAAAGGCAAAGGTTAAATGATCCCATGATACGTGGTTCTGATGGACG
Basic information
species | Glycine max |
transcript | GLYMA18G04730.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G04730.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os03g50540.1 (Oryza sativa), 3'ss of exon 3
tttttccaaaaaagaaaaaaaaacttcttagggatagaagaggt-tggcttctttccatagtttgctatttttaaagcttgt-tctgcttgcccattgcaggAGATAAATGAAGAATGGATTTCGGATAAAACCCGCTTTTGTTATGATGGTTTGAAAAGGCAAAGGTTAAATGATCCCATGATACGTGGTTCTGATGGACG
|| | | | |||||| || | | | | ||| || | | | | ||| | | | | | || |||||||| || ||||| |||||||| || || ||||| || ||||||||||||||| |||| |||||||| |||| || |||||||| |||||| |||||||
-gttcaacagcgtgttgatgaaactttttcccttcgtctgttatgtcacatctgtctgaaataaacactgagtaagcttcctgttttcgtgatacttgcagGATATCAATGAGGAATGGATATCTGACAAAACACGGTTTTGTTATGATGGTCTGAAGAGGCAAAGACTAAACGACCCCATGATCCGTGGTACTGATGGCA-
upper sequence: GLYMA18G04730.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G126038_T01 (Zea mays), 3'ss of exon 3
----------------------------------------------------------------------------------------------tttttccaaaaaagaaaaaaaaacttcttagggatagaagaggttggcttctttccatagtttgctattttta---aagcttgttctgcttgcccattgcaggAGATAAATGAAGAATGGATTTCGGATAAAACCCGCTTTTGTTATGATGGTTTGAAAAGGCAAAGGTTAAATGATCCCATGATACGTGGTTCTGATGGACG
| | || | | |||| | | | | | || | | | || | ||| |||| || | | | || |||||||||| || ||||| |||||||| |||||||| || || |||||||||||||||||||| |||||||| ||||||| || ||||| |||||| |||||||
gttggtttattctccatttctgttacaattttgacttttgtgtttgttttgttggtggggtattcatgtgtcctaatgcttcgtggtgtatcattgacttcatttagtccgcttctatatctttgataaaaaggttattatcatataaat-tatgtcaatatgtttagttaacaccactttccctgttcattgcagGACATTAATGAGGAATGGATATCGGATAAGACACGATTTTGTTATGATGGTTTGAAGAGGCAAAGACTAAATGACCCTATGATCCGTGGTCCTGATGGCA-
upper sequence: GLYMA18G04730.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G145854_T01 (Zea mays), 3'ss of exon 3
--------------------------------------------------------------------------------------tttttccaaaaaagaaaaaaaaacttcttagggatagaagaggttggcttctttccatagtttgctatttttaaagcttgttctgcttgcccattgcaggAGATAAATGAAGAATGGATTTCGGATAAAACCCGCTTTTGTTATGATGGTTTGAAAAGGCAAAGGTTAAATGATCCCATGATACGTGGTTCTGATGGACG
| ||| | | | |||| | || | | || || | || || || | | | | | || | ||| || |||||||| || ||||| |||||||||||||| ||||| || ||||||||||||||| |||| |||||||| ||||||| || ||||| |||||| |||||||
gtttgtttattctccatttattttacaatttggatttttgtgtttttttttgtattcatgtgacctactgcttcgctatgtatcattagttcatcattttgctattctatatctttgagaaaccaaagattattatgttaatatgtttagtgaacatcacttttcctttttcttttcc-ttgcagGACATTAATGAGGAATGGATTTCGGACAAAACACGGTTTTGTTATGATGGTCTGAAGAGGCAAAGACTAAATGACCCTATGATCCGTGGTCCTGATGGCA-
upper sequence: GLYMA18G04730.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G37510.2 (Arabidopsis thaliana), 3'ss of exon 3
tttttccaaaaaagaaaaaaaaacttcttagggatagaagaggttggcttctttccatagtttgctatttttaaagcttgttctgcttgcccattgcaggAGATAAATGAAGAATGGATTTCGGATAAAACCCGCTTTTGTTATGATGGTTTGAAAAGGCAAAGGTTAAATGATCCCATGATACGTGGTTCTGATGGACG
| | || ||| | | | || | | || | || |||||| | | | ||||| | | ||| ||||| ||||| ||||||||||| || || |||||||| || |||||||| || ||||||| |||||| | | || || ||||| || | ||| |||||||
-------------gtatgtaatgctttt----gttcaaaaacacta-tttttaaaagtattttgctggatgttgaacttgtga-atgttcttatt-cagGATATAAACGAAGAATGGATATCTGACAAAACCCGATTCTGTTATGACGGCCTGAAAAGACAAAGGCTGAGCGACCCTATGATCCGAGATTCCGATGGAC-
upper sequence: GLYMA18G04730.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0006g02020.t01 (Vitis vinifera), 3'ss of exon 3
tttttccaaaaaagaaaaaaaaacttcttagggataga-agaggt----tggcttcttt--ccatagtttgctatttttaa----agcttgttctgcttgcccattgcaggAGATAAATGAAGAATGGATTTCGGATAAAACCCGCTTTTGTTATGATGGTTTGAAAAGGCAAAGGTTAAATGATCCCATGATACGTGGTTCTGATGGACG
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----------gaggatctttgtgtttttttaacttgttcagatgtcttttagcatcttttactgaaatgtaagatcatcaatttcagctggctttgctgaactgttgcagGACATAAATGAGGAATGGATATCAGACAAAACACGTTTCTGTTATGATGGTCTGAAGAGGCAGAGGTTAAATGATCCTATGATTCGTGGTGCTGATGGAC-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: TGATAGCAGAGGACCTGAAGTGATGCGCATTGTTCCTCGTTTAAATGAGG AGATAAATGAAGAATGGATTTCGGATAAAACCCGCTTTTGTTATGATGGTT
genomic: TGATAGCAGAGGACCTGAAGTGATGCGCATTGTTCCTCGTTTAAATGAGGttagattctc ... ccattgcaggAGATAAATGAAGAATGGATTTCGGATAAAACCCGCTTTTGTTATGATGGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggcttctttccatagtttgctatttttaaagcttgttctgcttgcccattgcaggAGATAAATGAAGAATGGATTTCGGATAAAACCCGCTTTTGTTATGATGGTTTGAAAAGGCAAAGGTTAAATGATCCCATGATACGTGGTTCTGATGGACG
cttgccc CT-rich tract
tttgctatttttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttccaaaaaagaaaaaaaaacttcttagggatagaagaggttggcttctttccatagtttgctatttttaaagcttgttctgcttgcccattgcaggAGATAAATGAAGAATGGATTTCGGATAAAACCCGCTTTTGTTATGATGGTTTGAAAAGGCAAAGGTTAAATGATCCCATGATACGTGGTTCTGATGGACG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - -aaaagaa
- - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - -gaggttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcttgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcttgc