Sequence
atgc intronic sequence ATGC exonic sequencegtatgagatggtttacatacaagtataaatctatgttggcatgttttcctgtgttagtaatggcagtgagctgcgaaccagtatgcatattgtctacttttagacttagtacacctaatgctgatttcattcttttatattaaactaaagcattattagGTTCCAGGTATTGTGTTTGCAAGAGGACCAGCTGTGGCTGTGTTGATGCTCCTGGAATCAGAGGGTGAGACTTATGCTGTTCTTACTGAACAG
Basic information
species | Glycine max |
transcript | GLYMA05G04150.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G04150.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os06g03910.1 (Oryza sativa), 3'ss of exon 2
gtatgagatggtttacatacaagtataaatctatgttggcatgttttcctgtgttagtaatggcagtgagctgcgaaccagtatgcatattgtctact-tttagacttagtacacctaatgctgatttcattcttttatattaaactaaagcattattagGTTCCAGGTATTGTGTTTGCAAGAGGACCAGCTGTGGCTGTGTTGATGCTCCTGGAATCAGAGGGTGAGACTTATGCTGTTCTTACTGAACAG
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------------------------------------------------------tattccttgtagcatgttg-aattagatgtggtcgttgtataggattcaaagtaagcggattttgtgtgtattatatt--ttgagttttgac---aatatatccagATTCCAGGAATTGTATTTGCAAGAGGGCCTGCTGTTGCTGTGTTGATTCTTTTGGAGTCTAAAGGGCAAACTTACGCTGTTCTTACAGAACAG
upper sequence: GLYMA05G04150.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G069008_T04 (Zea mays), 3'ss of exon 3
gtatgagatggtttacatacaagtataaatctatgttggcatgttttcctgtgttagtaatggcagtgagctgcgaaccagtatgcatattgtctacttttagacttagtacacctaatgctgatttcattcttttatattaaactaaagcattattagGTTCCAGGTATTGTGTTTGCAAGAGGACCAGCTGTGGCTGTGTTGATGCTCCTGGAATCAGAGGGTGAGACTTATGCTGTTCTTACTGAACAG
| | | | | | ||| || || |||| | || || ||| || | | |||| | | ||||| | | | | | | || |||||||||||| ||||| ||||||||||| || || || ||||||||||| || |||| || | || || || |||||||| ||||| ||||||
------------------------------------------------atctactgatgaattccttga-ctttaaattggtatttgtgaggtgta----tagcaccagcaggac-aatgtttagttcatatcatcttttgaca-----gtatatttagGTTCCAGGAATTGTCTTTGCAAGAGGGCCCGCGGTTGCTGTGTTGATTCTTTTGGAGTCGAATGGAGAAACATATGCTGTGCTTACCGAACAG
upper sequence: GLYMA05G04150.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G074664_T01 (Zea mays), 3'ss of exon 2
gtatgagatggtttacatacaagtataaatctatgttggcatgttttcctgtgttagtaatggcagtgagctgcgaaccagtatgcatattgtctacttttagacttagtacacctaatgctgatttcattcttttatattaaactaaagcattattagGTTCCAGGTATTGTGTTTGCAAGAGGACCAGCTGTGGCTGTGTTGATGCTCCTGGAATCAGAGGGTGAGACTTATGCTGTTCTTACTGAACAG
| | | | | | ||| || || || | || || || ||| | | | |||| | | ||||| | | |||| || || |||||||||||| ||||| ||||||||||| || || || ||||||||||| || |||| || | || || || |||||||| ||||| ||||||
------------------------------------------------atctactgatgaattccttga-ctttaaattggtgtttgtaaggtgta----tagcaccaacaggac-aatgtttagttcatataatctt-ttaac----agtatatttagGTTCCAGGAATTGTCTTTGCAAGAGGGCCCGCGGTTGCTGTGTTGATTCTTTTGGAGTCGAATGGAGAAACATATGCTGTGCTTACCGAACAG
upper sequence: GLYMA05G04150.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G11980.1 (Arabidopsis thaliana), 3'ss of exon 3
gtatgagatggtttacatacaagtataaatctatgttggcatgttttcctgtgttagtaatggcagtgagctgcgaaccagtatgcatattgtctacttttagacttagtacacctaatgctgatttcattcttttatat-taaactaaagcattattagGTTCCAGGTATTGTGTTTGCAAGAGGACCAGCTGTGGCTGTGTTGATGCTCCTGGAATCAGAGGGTGAGACTTATGCTGTTCTTACTGAACAG
||| | | | || | || | ||| | | || || | | | | ||| | || | ||| | | |||| ||| ||||| | | ||||||||||||||||||| |||||| ||||||||||||| |||||| | || ||| |||| ||||| |||||||||||||| ||||| |||||||||
--------------------------------------------------------gtatc--taatcatcttcaaaattagaatcatctcg-ctcgttgtggtcattgtata-----tgttagttttgct-tgccatatgtaagctaaaacgtcattagGTTCCAGGTATTGTATTTGCACGAGGACCAGCTGTAGCTGTGCTTATTCTCTTGGAGTCAGATGGTGAGACTTATGCGGTTCTCACTGAACAG
upper sequence: GLYMA05G04150.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv02s0025g04840.t01 (Vitis vinifera), 3'ss of exon 3
gtatgagatggtttacatacaagtataaatctatgttggcatgttttcctgtgttagtaatggcagtgagctgcgaaccagtatgc-atattgtctacttttagacttagtacacctaatgctgatttcattcttt-tatattaaac------taaagcattattagGTTCCAGGTATTGTGTTTGCAAGAGGACCAGCTGTGGCTGTGTTGATGCTCCTGGAATCAGAGGGTGAGACTTATGCTGTTCTTACTGAACAG
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------------------------------------------------------------------gaaattacatatacgtgttttattttctctaccttgaaaagta-tataccccattatcatatcattcttcatgtagtagacatggattaaaaccttcttagGTTCCTGGCATTGTGTTTGCAAGAGGACCAGCTGTAGCTGTGCTGATCCTTTTGGACTCAGAGGGCGAAATTTACACTGTTCTTACAGAACAGMapped 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|192321665|gb|FK014009.1|FK014009EST: GGTTTCTCAAGTTCAAAGCTGACATTTTTGACAAGGAAACAGGGAAAATG GTTCCAGGTATTGTGTTTGCAAGAGGACCAGCTGTGGCTGTGTTGATGCTC
genomic: GGTTTCTCAAGTTCAAAGCTGACATTTTTGACAAGGAAACAGGGAAAATGgtatgagatg ... gcattattagGTTCCAGGTATTGTGTTTGCAAGAGGACCAGCTGTGGCTGTGTTGATGCTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttagtacacctaatgctgatttcattcttttatattaaactaaagcattattagGTTCCAGGTATTGTGTTTGCAAGAGGACCAGCTGTGGCTGTGTTGATGCTCCTGGAATCAGAGGGTGAGACTTATGCTGTTCTTACTGAACAG
aactaaa putative branch site (score: 2)
atttcattcttttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgagatggtttacatacaagtataaatctatgttggcatgttttcctgtgttagtaatggcagtgagctgcgaaccagtatgcatattgtctacttttagacttagtacacctaatgctgatttcattcttttatattaaactaaagcattattagGTTCCAGGTATTGTGTTTGCAAGAGGACCAGCTGTGGCTGTGTTGATGCTCCTGGAATCAGAGGGTGAGACTTATGCTGTTCTTACTGAACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT