Sequence
atgc intronic sequence ATGC exonic sequenceTTTGGTCTAGCAAAAGCAGGGCCTCAAGGAGACAAAACACATGTTTCTACCAGGGTAGTTGGAACTTATGGTTATGCTGCTCCAGAATATGTCATGACAGgtaagaatgtagcagtaggtagcttgaaaggacaagaaaactctttagtatccaatgcagcacaagaacttctgtaaatgttgtgctaatagttgtatca...
Basic information
species | Glycine max |
transcript | GLYMA17G12060.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G12060.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os06g07230.1 (Oryza sativa), 5'ss of exon 5
TTTGGTCTAGCAAAAGCAGGGCCTCAAGGAGACAAAACACATGTTTCTACCAGGGTAGTTGGAACTTATGGTTATGCTGCTCCAGAATATGTCATGACAGgtaa--gaatgtagcagtaggtagcttgaaaggacaagaaaactctttagtatccaatgcagcacaagaacttctgtaaatgttgtgctaatagttgtatca
||||| |||| ||||| || |||||||| || ||||| ||||| ||||| |||| || || || |||||||||||||| || || ||||| |||||||||| | | | | | ||| ||| | | || | | | ||| | | | | || | || || | | || ||
TTTGGGTTAGCGAAAGCTGGTCCTCAAGGCGATAAAACTCATGTCTCTACACGGGTTGTCGGTACCTATGGTTATGCTGCACCCGAGTATGTAATGACAGgtattttacggaaacttttggttttttgtc-gtctacttgaatcaaattttctttaatacgaatctaccagttagtattttattatgtttctgtgagtttc-
upper sequence: GLYMA17G12060.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G007801_T01 (Zea mays), 5'ss of exon 2
TTTGGTCTAGCAAAAGCAGGGCCTCAAGGAGACAAAACACATGTTTCTACCAGGGTAGTTGGAACTTATGGTTATGCTGCTCCAGAATATGTCATGACAGgta--------agaatgtagcagtaggtagcttgaaaggacaagaaaactctttagtatccaa-tgcagcacaagaacttctgtaaatgttgtgctaatagttgtatca
|| ||| |||||||||| || ||||| || || ||||| ||||| ||||| |||| ||||| || |||||||||||||| ||||| ||||| |||||||||| | | | | | | |||||| || || || | | | || ||| | | | |||| | || |
TTCGGTTTAGCAAAAGCTGGTCCTCAGGGTGATAAAACTCATGTATCTACTCGGGTTGTTGGCACCTATGGTTATGCTGCACCAGAGTATGTAATGACAGgtatcagggataaacttttgacttcagtagctacctgtagcagaaattctgtagcttgcttatctgttgcatgttggttctttacactgtttttctgagc---------
upper sequence: GLYMA17G12060.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G446189_T01 (Zea mays), 5'ss of exon 7
TTTGGTCTAGCAAAAGCAGGGCCTCAAGGAGACAAAACACATGTTTCTACCAGGGTAGTTGGAACTTATGGTTATGCTGCTCCAGAATATGTCATGACAGgta--------agaatgtagcagtaggtagcttgaaaggacaagaaaactctttagtatccaa-tgcagcacaagaacttctgtaaatgttgtgctaatagttgtatca
|| ||| |||||||||| || ||||| || || ||||| ||||| ||||| |||| ||||| || |||||||||||||| ||||| ||||| |||||||||| | | | | | | |||||| || || || | | | || ||| | | | |||| | ||||
TTCGGTTTAGCAAAAGCTGGTCCTCACGGTGATAAAACTCATGTATCTACTCGGGTTGTTGGCACCTATGGTTATGCTGCACCAGAGTATGTAATGACAGgtatcagggataaacttttgacttcagtagctacctgtagcagaaattctgtagcttgcttatctgttgcatgttggttctttacactgtttttctaagc---------
upper sequence: GLYMA17G12060.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G014596_T01 (Zea mays), 5'ss of exon 5
TTTGGTCTAGCAAAAGCAGGGCCTCAAGGAGACAAAACACATGTTTCTACCAGGGTAGTTGGAACTTATGGTTATGCTGCTCCAGAATATGTCATGACAGgtaagaatgtagcagtaggtagcttgaaaggacaa-------gaaaactctttagtatccaa---tgcagcacaagaacttctgtaaatgttgtgctaatagttgtatca
|| || |||||||||| || ||||| || || ||||| ||||| | ||| |||| ||||| || |||||||||||||| ||||| ||||| |||||||||| | | | | ||| | | | ||| ||| ||| | | || ||| | | | |||| | || |
TTCAGTTTAGCAAAAGCTGGTCCTCAGGGTGATAAAACTCATGTATATACTCGGGTTGTTGGCACCTATGGTTATGCTGCACCAGAGTATGTAATGACAGgtatcagggataaactgaaggacttcagtagctacctgtagcagaaattctatagcttgcttatctgttgcatgttggttctttacactgtttttctgag----------
upper sequence: GLYMA17G12060.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv11s0016g05720.t01 (Vitis vinifera), 5'ss of exon 5
TTTGGTCTAGCAAAAGCAGGGCCTCAAGGAGACAAAACACATGTTTCTACCAGGGTAGTTGGAACTTATGGTTATGCTGCTCCAGAATATGTCATGACAGgtaagaatgtagcagtaggtagcttgaaaggacaagaaaact--ctttagtatccaat--gcagc-acaagaacttctgtaaatgttgtgctaatagttgtatca
|| ||||| |||||||| || ||||| | || | ||||||||||| || ||||| |||||||| ||||| ||||||||||| |||||||| | |||||||| | ||| | || | |||| | | | || | || | | || ||| | || | |||||||| || | | |||| | ||
TTCGGTCTGGCAAAAGCTGGCCCTCAGGAAGGTGACACACATGTTTCAACAAGGGTTGTTGGAACATATGGCTATGCTGCTCCCGAATATGTGAGGACAGgtataa--gtaatatcagatgatttgatctaattgaagagctagccttttcaactaaacagcatccaccaaaacttctgaaagggatttgctgggaattagt---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|10232151|gb|BE801039.1|BE801039EST: CAGGGTAGTTGGAACTTATGGTTATGCTGCTCCAGAATATGTCATGACAG GACACTTGACAGCTAAAAGTGATGTTTATAGCTNTGGAGTTGTGTTACTTG
genomic: CAGGGTAGTTGGAACTTATGGTTATGCTGCTCCAGAATATGTCATGACAGgtaagaatgt ... tttttaccagGACACTTGACAGCTAAAAGTGATGTTTATAGCTTTGGAGTTGTGTTACTTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTGGTCTAGCAAAAGCAGGGCCTCAAGGAGACAAAACACATGTTTCTACCAGGGTAGTTGGAACTTATGGTTATGCTGCTCCAGAATATGTCATGACAGgtaagaatgtagcagtaggtagcttgaaaggacaagaaaactctttagtatccaatgcagcacaagaacttctgtaaatgttgtgctaatagttgtatca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acaagaaa