Sequence
atgc intronic sequence ATGC exonic sequence...taataaatgtacatgattataattgttgggacatataagcaatgttccgagtttaaattctaaatatttataatttcatataactatattttgttttcagGTGATCTCAAGCGTATTTGTGAAACCGACCTTGGTTTAATTTCTCAATGTTGTTTGACAAAGCATGTCTTTAAGATCACAAAGCAGTATTTGGCTAATGT
Basic information
species | Glycine max |
transcript | GLYMA02G00510.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 12
------------taataaatgtacatgat-tataattgttgggacatataagcaatgttccgagtttaaattctaaatatttataatttcatataactatattttgttttcagGTGATCTCAAGCGTATTTGTGAAACCGACCTTGGTTTAATTTCTCAATGTTGTTTGACAAAGCATGTCTTTAAGATCACAAAGCAGTATTTGGCTAATGT
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gtaagtgccatctgctaattgctttgaatatataattacttcaactcttacatattttatcagatataactt-tatatatatttaaagcgatataacttcat---atgtgtagGTGACATCAAACGTATTTGTGAAACTGATTTGGGGTTGATATCACAATGTTGCTTAACCAAGCATGTTTTTAAGATCAGCAAGCAGTACTTGGCAAATGT
upper sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 12
lower sequence: AT5G43810.2 (Arabidopsis thaliana), 3'ss of exon 12
taataaatgtacatgattataattgttgggacatataagcaatgttccgagtttaaattctaaatatttataatttcatataactatattttgt--tttcagGTGATCTCAAGCGTATTTGTGAAACCGACCTTGGTTTAATTTCTCAATGTTGTTTGACAAAGCATGTCTTTAAGATCACAAAGCAGTATTTGGCTAATGT
|| ||| | | | | ||| | | | || |||| ||| || | || | || | | | |||| | ||||||||||| ||| | || ||||||||||| |||||||| || |||||||||||| | ||||| ||||| || ||||| | || |||||| |||| |||||
----------gtattatttcgac-atccataaacttaacccttttgccttctttagt-----aatggttttgatgaaaacgaaatgtttcttgtaatctcagGTGATCTTAAGAGAATCTGTGAAACCGAGCTTGGTTTGATATCTCAATGTTGTCTCACAAAACATGTGTTCAAGATTAGCAAACAGTATCTGGCAAATGT
upper sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 12
lower sequence: PP1S7_194V6.1 (Physcomitrella patens), 3'ss of exon 10
-------------------------------------------------------taataaat-gtacatgattataattgttgggacatataagcaatgttccgagtttaaattctaaatatttataatttcatataactatattttgttttcagGTGATCTCAAGCGTATTTGTGAAACCGACCTTGGTTTAATTTCTCAATGTTGTTTGACAAAGCATGTCTTTAAGATCACAAAGCAGTATTTGGCTAATGT
| | | | | | || ||| | |||| | | | | | || ||| || || | ||| || || | | | || | ||||||||| ||| ||||| || | ||| || | |||| |||||||||||||| ||||||||||| ||||| | ||||||||||| || |||||
gtatgttaaggttcttgtttctatcaaacagattaaaactctttcatttaagtcctgacgacttatgggtaatgttaact-ttggcataatctggttggacttttatttgcgattttatttaagcttgattctatcta-ttgtgcatggtatgtagGTGATCTGAAGAAGCAATGTGAGACTGTCCTGGGAGTGGTTTCACAATGTTGTTTGACTAAGCATGTCTTCAAGATGAGCAAGCAGTATTTAGCAAATGT
upper sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 12
lower sequence: EFJ14095 (Selaginella moellendorffii), 3'ss of exon 12
taataaatgtacatgattataattgttgggacatataagcaatgttccgagtttaaattctaaatatttataatttcatataactatattttgttttcagGTGATCTCAAGCGTATTTGTGAAACCGACCTTGGTTTAATTTCTCAATGTTGTTTGACAAAGCATGTCTTTAAGATCACAAAGCAGTATTTGGCTAATGT
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--------------------------------------------------gtaagagacttggttttttacagatt--tgctgataagttttattc-cagGCGACTTGAAACGAATCTGCGAAACAGACCTGGGATTGGTTTCTCAATGCTGCTTGACAAAGCATGTCTTTAAGAGAGGAAAGCAGTATCTTGCTAATGTMapped 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|193408931|gb|FK371157.1|FK371157EST: TTCTCTCTATG GTGATCTCAAGCGTATTTGTGAAACCGACCTTGGTTTAATTTCTCAATGTT
genomic: TTCTCTCTATGgtaagctgcc ... ttgttttcagGTGATCTCAAGCGTATTTGTGAAACCGACCTTGGTTTAATTTCTCAATGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccgagtttaaattctaaatatttataatttcatataactatattttgttttcagGTGATCTCAAGCGTATTTGTGAAACCGACCTTGGTTTAATTTCTCAATGTTGTTTGACAAAGCATGTCTTTAAGATCACAAAGCAGTATTTGGCTAATGT
ttttgttttc CT-rich tract
tttaaattctaaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taataaatgtacatgattataattgttgggacatataagcaatgttccgagtttaaattctaaatatttataatttcatataactatattttgttttcagGTGATCTCAAGCGTATTTGTGAAACCGACCTTGGTTTAATTTCTCAATGTTGTTTGACAAAGCATGTCTTTAAGATCACAAAGCAGTATTTGGCTAATGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - -aatgtac
- - - - - - - - - - - -tgttggg
- - - - - - - - - - - - - - - - - - - -caatgtt