Sequence
atgc intronic sequence ATGC exonic sequenceTGGAAGGAAATTCTGGTTATGGTCGTGGTGATTACTTTCTAGTTGGTCATGACTTCCCAAGCTACATGGATACTCAAGCAAAAGTTGATGAAGTGTATCGgtaagactaaatctcgtaggcattttcacgttttactttcctctacttgtttgtcatcaaaataaaaccctttttgtatagttacataagtatacagcca...
Basic information
species | Glycine max |
transcript | GLYMA18G07480.1 |
intron # | 14 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G07480.1 (Glycine max), 5'ss of exon 14
lower sequence: LOC_Os01g63270.1 (Oryza sativa), 5'ss of exon 14
TGGAAGGAAATTCTGGTTATGGTCGTGGTGATTACTTTCTAGTTGGTCATGACTTCCCAAGCTACATGGATACTCAAGCAAAAGTTGATGAAGTGTATCGgtaagactaaatctcgtaggcattttcacgt-tttactt--tcctctacttgtttgtcatcaaaataaaaccctttttgtatagttacataagtatacagcca
| |||||||||||||| | ||||||||||||||| || || ||||| |||| ||||||||||| || ||| | || || | |||||||||| || ||||| ||| | | | |||| || | ||||| | | | | || | | |||| | |||| | | | || | | ||| || | |
TTGAAGGAAATTCTGGATTTGGTCGTGGTGATTATTTCCTCGTTGGCTATGATTTCCCAAGCTATATTGATGCACAGGCCCAGGTTGATGAAGCCTACAAgtaaggataacaaacat-gctatttgcatttacttactccatacattgcaaattcttgaacaaa-cataaccatgctccaacaggt-cttaatgctatgggaa
upper sequence: GLYMA18G07480.1 (Glycine max), 5'ss of exon 14
lower sequence: GRMZM2G085577_T01 (Zea mays), 5'ss of exon 14
TGGAAGGAAATTCTGGTTATGGTCGTGGTGATTACTTTCTAGTTGGTCATGACTTCCCAAGCTACATGGATACTCAAGCAAAAGTTGATGAAGTGTATCGgtaagactaaatctcgtaggcattttcacgttttactttcct-ctacttgtttgtcatcaaaataaaaccctttttgtatagttacataagtatacagcca-
| ||||| |||||||| | ||| ||||||||||| || || ||||| ||||||||||||||||||| ||| | || | || |||| || || |||||| | || |||| | || || ||| | | | || | | | | || | | | | | | | |
TTGAAGGGAATTCTGGATTTGGGCGTGGTGATTATTTCCTTGTTGGCTATGACTTCCCAAGCTACATCGATGCACAGGATCGGGTGGATGCAGCCTACAAgtaagaacactaacaatattttttttt-cattaagctcacctgcaagctcttggactgctgtttgtaattttacccaaaaaatcg-gtgccttcatattagt
upper sequence: GLYMA18G07480.1 (Glycine max), 5'ss of exon 14
lower sequence: AT3G46970.1 (Arabidopsis thaliana), 5'ss of exon 15
TGGAAGGAAATTCTGGTTATGGTCGTGGTGATTACTTTCTAGTTGGTCATGACTTCCCAAGCTACATGGATACTCAAGCAAAAGTTGATGAAGTGTATCGgtaagactaaatctcgtaggcattttcacgttttact--ttcctctacttgtttgtcatcaaaataaaaccctttt---tgtatagttacataagtatacagcca----------------
| || || || | |||| ||| |||||||||||||| || ||||| |||||||||| ||||||||||| |||| || |||||||| |||| ||| ||||| | | ||| | || || | || | || || | | |||| | | |||| ||| | | | | | | | | | || ||
TTGAGGGTAACACAGGTTTTGGACGTGGTGATTACTTCCTGGTTGGGTATGACTTCCCCAGCTACATGGACGCTCAGGCCAAAGTTGACGAAGCTTATAAgtaagtccatctcttaaacccaacttatccattcataagtttcttttttagtttat-acaaaaactgaactgaaatgaatactcaagttctttaatgtg-agtcataatatgttgtgacag
upper sequence: GLYMA18G07480.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv06s0004g06020.t01 (Vitis vinifera), 5'ss of exon 14
TGGAAGGAAATTCTGGTTATGGTCGTGGTGATTACTTTCTAGTTGGTCATGACTTCCCAAGCTACATGGATACTCAAGCAAAAGTTGATGAAGTGTATCGgtaaga--ctaaatctcg---------taggcattttcacgttttactttcctctacttgtttgtcatcaaaataaaaccctttttgtatagttacataagtatacagcca
| || ||||||||||||||||||||||| ||||||||||| |||||||| |||||||| ||||||||||| |||| |||| ||| ||||||| || |||||| |||| ||| || || ||| | | | || || || |||| || | | | || || | |
TAGAGGGAAATTCTGGTTATGGTCGTGGCGATTACTTTCTTGTTGGTCACGACTTCCCTGGCTACATGGATGCTCAGGCAAGAGTGGATGAAGCCTACAAgtaagaaactaacgctctcctaatctttaaatataacaacgctctgtacatcagattttactttatattaaaaggaagcaaggaaaggaaagctataaag-----------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|9903247|gb|BE612215.1|BE612215EST: GACTTCCCAAGCTACATGGATACTCAAGCAAAAGTTGATGAAGTGTATCG TGATAGGAAAAAATGGCTAAAAATGTCCATCCTAAGCACTGCTGGGAGTGG
genomic: GACTTCCCAAGCTACATGGATACTCAAGCAAAAGTTGATGAAGTGTATCGgtaagactaa ... ttgcttgcagTGATAGGAAAAAATGGCTAAAAATGTCCATCCTAAGCACTGCTGGGAGTGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGAAGGAAATTCTGGTTATGGTCGTGGTGATTACTTTCTAGTTGGTCATGACTTCCCAAGCTACATGGATACTCAAGCAAAAGTTGATGAAGTGTATCGgtaagactaaatctcgtaggcattttcacgttttactttcctctacttgtttgtcatcaaaataaaaccctttttgtatagttacataagtatacagcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaataaa