Sequence
atgc intronic sequence ATGC exonic sequence...ttattatgaaataataaataccaaacctaccttttaaggctgaagaaaatatgtggtttaactaaagataaacagtgataattttctagatgaaattcagGTTTGATGCCAAGATAGCAGCAGCAGTAGCTGAGGAAACAAATCTGCCTTTTGTCACGGCAGAAAATAAGTTTGAGGCCTTG
Basic information
species | Glycine max |
transcript | GLYMA02G01930.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G01930.2 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G010823_T01 (Zea mays), 3'ss of exon 8
-ttattatgaaataataaataccaaacctaccttttaaggctgaagaaaatatgtggtttaactaaagataaacagtgataattttctagatgaaattcagGTTTGATGCCAAGATAGCAGCAGCAGTAGCTGAGGAAACAAATCTGCCTTTTGTCACGGCAGAAAATAAGTTTGAGGCCTTG
| || | | || | | || | || | ||| | || || || | | |||| | | ||| | | ||||| ||||||||||| ||||| || ||||| |||||||||||||| || || ||||| || ||||| || |||||||| || |||
ttggtttaggattactttgaaacagagtgttaattccatgctttacctaaggcgttcctttcatttatttaaataccta-aatccaatctgtctttttcagATTTGATGCCAAAATAGCTGCTGCAGTGGCTGAGGAAACAAACCTACCCTTTGTGACAGCAGAGAACAAGTTTGAAGCTTTG
upper sequence: GLYMA02G01930.2 (Glycine max), 3'ss of exon 8
lower sequence: AT2G47510.2 (Arabidopsis thaliana), 3'ss of exon 9
-------ttattatgaaataataaataccaaacctaccttttaagg----ctgaagaaaatatgtggtttaactaaaga------taaacagtgataattttctagatgaa-attcagGTTTGATGCCAAGATAGCAGCAGCAGTAGCTGAGGAAACAAATCTGCCTTTTGTCACGGCAGAAAATAAGTTTGAGGCCTTG
| ||| || | | | | ||| | | | | | | || |||| || |||| | || | | || || ||| | || | ||||||||||| |||||||| || ||||||||||| |||||||| |||| |||||||| |||||||| |||||||| || ||
gtatatctcatttctaatt--ttatttccataattccatcccaggttcatctctcctaaatttgatgttttattagtgggctttgtccactgtagtaacactagtaatatctgtacagGTTTGATGTAAAGATAGCTGCTGCAGTAGCTGAAGAAACAAACTTGCCATTTGTCACTGCAGAAAACAAGTTTGAAGCTCTG
upper sequence: GLYMA02G01930.2 (Glycine max), 3'ss of exon 8
lower sequence: AT5G50950.3 (Arabidopsis thaliana), 3'ss of exon 7
ttattatgaaataataaataccaaacctaccttttaaggctgaagaaaatatgtggtttaactaaagataaacagtgataattttctagatgaaattcagGTTTGATGCCAAGATAGCAGCAGCAGTAGCTGAGGAAACAAATCTGCCTTTTGTCACGGCAGAAAATAAGTTTGAGGCCTTG
| | || | ||| || | | || || | | | |||| | || ||| ||| | |||||||||| ||||| || || ||||||||||| |||||||| |||| || ||||| |||||||| |||||||| || ||
--------------------gtatatct-cgtttctagttttatatccattccgatttcatcctactggtaacactagta-----ctatatgca---tagGTTTGATGTAAAGATCGCTGCTGCAGTAGCTGAAGAAACAAACTTGCCATTCGTCACCGCAGAAAACAAGTTTGAAGCTCTG
upper sequence: GLYMA02G01930.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv07s0005g00880.t01 (Vitis vinifera), 3'ss of exon 9
-ttattatgaaataataaataccaaacctaccttttaaggctgaagaaaatatgtggtttaactaaagataaacagtgataattttctagatgaaattcagGTTTGATGCCAAGATAGCAGCAGCAGTAGCTGAGGAAACAAATCTGCCTTTTGTCACGGCAGAAAATAAGTTTGAGGCCTTG
||| | |||| | || || || | | | | | || | || | | | | | | ||| | ||| |||||||||| |||||||| |||||| || |||||||||||| | || || ||||| |||||||| |||||||| || ||
agtatgtgcatttaattttctctcaatct-tattatgaagtccatttatccatattagttgttttttagttcatgatagtcaatttttgagcttcatttagGTTTGATGTAAAGATAGCTAGAGCAGTTGCCGAGGAAACAAATTTACCATTCGTCACAGCAGAAAACAAGTTTGAAGCACTGMapped 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|151394627|gb|EV264498.1|EV264498EST: CTTGCCCAGGGTGGTACAGCTGTAGGGACTGGATTGAATACCAAGAAGGG GTTTGATGCCAAGATAGCAGCAGCAGTAGCTGAGGAAACAAATCTGCCTTT
genomic: CTTGCCCAGGGTGGTACAGCTGTAGGGACTGGATTGAATACCAAGAAGGGgtaagtattc ... tgaaattcagGTTTGATGCCAAGATAGCAGCAGCAGTAGCTGAGGAAACAAATCTGCCTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaatatgtggtttaactaaagataaacagtgataattttctagatgaaattcagGTTTGATGCCAAGATAGCAGCAGCAGTAGCTGAGGAAACAAATCTGCCTTTTGTCACGGCAGAAAATAAGTTTGAGGCCTTG
aactaaa putative branch site (score: 2)
tttaactaaagataaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttattatgaaataataaataccaaacctaccttttaaggctgaagaaaatatgtggtttaactaaagataaacagtgataattttctagatgaaattcagGTTTGATGCCAAGATAGCAGCAGCAGTAGCTGAGGAAACAAATCTGCCTTTTGTCACGGCAGAAAATAAGTTTGAGGCCTTG
- - - - - - - - - - ccaaacc
- - - - - - - - - - - - - - - - - - aggctga
- - - - - - - - - - - - - - - - - - - - - -agaaaata
- - - - - - - - - - - - - - - - - - - - - - - - - -tgtggtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gataaac