Sequence
atgc intronic sequence ATGC exonic sequenceTGGCATTGAAATTTGAGCATAGGAACAGCAAAGGCTGTAATTATGGCCCTCCTTACGAGTGGCAAGTATACAAGtaggtgctttgtttatgttgcaagagatatatgttgtcaattgctttcgataagtgaatttgcctgagttttttgttttgttttgtgaaaagc
Basic information
species | Glycine max |
transcript | GLYMA18G53810.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G53810.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv06s0004g01090.t01 (Vitis vinifera), 5'ss of exon 3
-TGGCATTGAAATTTGAGCATAGGAACAGCAAAGGCTGTAATTATGGCCCTCCTTACGAGTGGCAAGTATACAAGtaggtgctttgtttatgtt---gcaagagatatatgttgtcaat------tgctttcgataagtga------------atttgcctgagttttttgttt----tgttttgtgaaaagc-----------------------
| || |||||||| ||||| || |||||||||||||| || ||||||||||| || |||||||| || |||||||| || |||| | || || || || | || |||| | ||||| | | ||| | | || | | ||| | | | | ||||
GTAGCTTTGAAATTCGAGCACAGAAACAGCAAAGGCTGCAACTATGGCCCTCCATATGAGTGGCAGGTGTACAAgtatgtctgaggtttcttttcaaacaggatatgattatttgcaatctttatttctttcaaagaatgagagtctttgtcaaatcacccaaaccctacatttacaatttctatttaaaaatttgttttggttattgttaaacag
upper sequence: GLYMA18G53810.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S66_174V6.1 (Physcomitrella patens), 5'ss of exon 3
-TGGCATTGAAATTTGAGCATAGGAACAGCAAAGGCTGTAATTATGGCCCTCCTTACGAGTGGCAAGTATACAAGtaggt---------gctttgtttatgttg-caagagatata-tgttgtc--aattgct-ttcgataagtgaatttgcctgagttttttgttttgttttgtgaaaagc-------------------------------------------------------
| || || || ||||| ||| ||| |||||| || || |||||||| |||||||||||||||||||| ||||||| || || || | | | | || | ||| | ||||||| ||| | | | | | || |||||| ||| |
GTAGCTTTAAAGTTTGAACATCGGAGCAGCAAGGGTTGCAATTATGGTCCTCCTTACGAGTGGCAAGTTTACAAgtgcgtctcgaaccgactcagtcctttctatcctttgctacaatgtcattggaattgctgttccaattctagcctcatcgtggaggttatttttgtgctgtcgggttcaatctaattaggtcataaatgttaatggtgatgataatccttggttgttgcgcag
upper sequence: GLYMA18G53810.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S208_44V6.1 (Physcomitrella patens), 5'ss of exon 3
---------TGGCATTGAAA----TTTGAGCATAGGAACAGCAAAGGCTGTAATTATGGCCCTCCTTACGAGTGGCAAGTATACAAGtaggtgctttgtttatgttgcaagagatata-tgttgtcaattgctttcgataagtgaatttgcct----gagttttttgttttgttttgtgaaaagc----------------------------------------------------
|| || || || |||||| ||| | || ||||||||| |||| |||||||||||||||||||| ||||||| || | | | | | | ||| | || || | | | | || ||| | ||| || |||| | | ||| |
GTTGCGGGTTGAAGTTCGAACAAGTTCGAGCATCGGAGTGGTAACGGCTGTAATCATGGTCCTCCTTACGAGTGGCAAGTTTACAAgtgcgtctcgagctcgtaccattgtgatttcactcttgagatgtgattactagtgtcgcaattacctttctgcatttcttattttcatcattcaaatgtgattagggcttgtctcctaaacctccatggttgacgcggattctttctccag
upper sequence: GLYMA18G53810.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ19085 (Selaginella moellendorffii), 5'ss of exon 3
-TGGCATTGAAATTTGAGCATAGGAACAGCAAAGGCTGTAATTATGGCCCTCCTTACGAGTGGCAAGTATACAAGtaggtgctttgtttatgt-tgcaagagatatatgttgtcaattgctttcgataagtgaatttgcctgagttttttgttttgttttgtgaaaagc
| || | || || |||||||||| ||||||||| || || ||||| ||||||||||| ||||| || ||| ||| || || ||| | |||| || | | || | ||||
GTTGCTCTCAAGTTCGAGCATAGGAGCAGCAAAGGTTGCAACTATGGGCCTCCTTACGAATGGCAGGTTTACGAgtgagtagttctaccatgagtcttttctctatagtttctaagttttggttgatag----------------------------------------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|7588450|gb|AW704307.1|AW704307EST: ACAGCAAAGGCTGTAATTATGGCCCTCCTTACGAGTGGCAAGTATACAAC ACCCTTGGTGGCAGCCATGGAATACCTAAAGTACACTACAAAGGAAGACAA
genomic: ACAGCAAAGGCTGTAATTATGGCCCTCCTTACGAGTGGCAAGTATACAAGtaggtgcttt ... tgtgaaaagcACCCTTGGTGGCAGCCATGGAATACCTAAAGTACACTACAAAGGAAGACAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGCATTGAAATTTGAGCATAGGAACAGCAAAGGCTGTAATTATGGCCCTCCTTACGAGTGGCAAGTATACAAGtaggtgctttgtttatgttgcaagagatatatgttgtcaattgctttcgataagtgaatttgcctgagttttttgttttgttttgtgaaaagc
- - - - - - - - - - - - - GCAAAG