Sequence
atgc intronic sequence ATGC exonic sequence...atctgtatatatattttttaacttaatatttttaccctctggtgttgggtattcctttaaatccttttcttgactatattctgtgtgcattgaataaaagCCCACAGATAGACCTGTTCCAAATGCAACTTTACAAGTTACTGGTGCTGTTGGTTGGCGGAGAGAAGGGCTTGTGTACAAAAAGAATGAG
Basic information
species | Glycine max |
transcript | GLYMA17G16630.3 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G16630.3 (Glycine max), 3'ss of exon 4
lower sequence: AT5G46630.1 (Arabidopsis thaliana), 3'ss of exon 4
----------------------------------------------atctgtatatatattttttaacttaa-tatttttaccctctggtgttgggtattcctttaaatccttttct----tgactatattc-tgtg-tgcattgaataaaagCCCACAGATAGACCTGTTCCAAATGCAACTTTACAAGTTACTGGTGCTGTTGGTTGGCGGAGAGAAGGGCTTGTGTACAAAAAGAATGAG
| || | | | || || |||| | | || ||| | | | ||| || || | || | |||| | | | | || || | |||| | ||| | |||||||||||||||||| ||||||||||| ||||||||||||||| | ||||| || |||| |||||||||||||||
gtaaaggcatctatttgtttgtgtatacaacagattttgtaattgtgttggtgtgtggttcttcgaagttaagcagtatttcccgcaataaatagagattatgttgcttcttcactagatatgtttgcattcataagcttcttttcattacagCCAAAAGACAAACCTGTTCCAAATGCAACATTACAAGTTACAGGTGCTGTTGGTTGGAGAAGAGAGGGCCTTGCTTACAAAAAGAATGAG
upper sequence: GLYMA17G16630.3 (Glycine max), 3'ss of exon 4
lower sequence: PP1S54_156V6.1 (Physcomitrella patens), 3'ss of exon 4
-------------------------------------------------------------------------------------------------atctgtatatatattttttaacttaatatttttaccctctggtgt-tgggtattcctttaaatccttttcttgactatattctgtgtgcattgaataaaagCCCACA-GATAGACCTGTTCCAAATGCAACTTTACAAGTTACTGGTGCTGTTGGTTGGCGGAGAGAAGGGCTTGTGTACAAAAAGAATGAG
| ||| | || | ||| | | |||||| | | | | | | | || ||||| | || ||| ||||||| | | || | | |||| || ||||||||| | |||||||| || |||||||||||| || ||||||| ||||| ||||| || ||||||
gtaacaggagttatatttaccttttatgcaggtttttgtacacgtcgtaatgagcgcatacacattgttttatcatccggatttgcgagtcttggcgacctggaaatgtgc---gtaattcatgatttttgctgcatattctacgaagacatcaagggtctctgcatctgactgt-ttttgt-tgcattggaatagGCCCTAGATAATAGGCCACCAATAAATGCAACCCTTCAAGTTACGGGAGCTGTTGGTTGGAGGCGAGAAGGTCTTGTTTACAAGAAAAATGAGMapped 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|209699279|gb|BW670241.1|BW670241EST: TAAAGCTTTATATCACTCAGGAAGGAGTGCGTTCCCCATTTTCATCCAAG CCCACAGATAGACCTGTTCCAAATGCAACTTTACAAGTTACTGGTGCTGTT
genomic: TAAAGCTTTATATCACTCAGGAAGGAGTGCGTTCCCCATTTTCATCCAAGgttagccagc ... tgaataaaagCCCACAGATAGACCTGTTCCAAATGCAACTTTACAAGTTACTGGTGCTGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgggtattcctttaaatccttttcttgactatattctgtgtgcattgaataaaagCCCACAGATAGACCTGTTCCAAATGCAACTTTACAAGTTACTGGTGCTGTTGGTTGGCGGAGAGAAGGGCTTGTGTACAAAAAGAATGAG
tcttgac putative branch site (score: 3)
attgaataaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atctgtatatatattttttaacttaatatttttaccctctggtgttgggtattcctttaaatccttttcttgactatattctgtgtgcattgaataaaagCCCACAGATAGACCTGTTCCAAATGCAACTTTACAAGTTACTGGTGCTGTTGGTTGGCGGAGAGAAGGGCTTGTGTACAAAAAGAATGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA