Sequence
atgc intronic sequence ATGC exonic sequence...acattgacttcacctcatctactgaaatactttattttctttgttaaatacatgcataattctctcattcttatgtgacacaagaccatgcattatatagGTCCTCTTCCAAAATGATTCCCCGGCAACATTACTTGCTCGGGTGATTGGTATAATTGGCCCAATTGATCAAGGTTTGCTTGCTAAAGCACGGGATACAT
Basic information
species | Glycine max |
transcript | GLYMA16G34510.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G34510.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G015073_T01 (Zea mays), 3'ss of exon 5
-acattgacttcacctcatc-tactgaaatactttattttctttgttaaatacatgcataattctctcattcttatgtgacacaagaccatgcattatatagGTCCTCTTCCAAAATGATTCCCCGGCAACATTACTTGCTCGGGTGATTGGTATAATTGGCCCAATTGATCAAGGTTTGCTTGCTAAAGCACGGGATACAT
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ttttttattattatttcaaggtatatattttttacctattttctgtcatatgcttgtatggtgcatggaagctgatgagtgcgtcctctatgcttttca--gGTCCTTTTCCAAAATGATTCTCCTGCAACATTACTTGCTCGCGTGATGGGCATCATTGGCTCCATAGAACAAGCTATGCTTGCACAGGGACGCGACACCT
upper sequence: GLYMA16G34510.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G181002_T01 (Zea mays), 3'ss of exon 5
----acattgacttcacctcatctactgaaatactttattttctttgttaaatacatgcataattctctcattcttatgtgacacaagaccatgcattatatagGTCCTCTTCCAAAATGATTCCCCGGCAACATTACTTGCTCGGGTGATTGGTATAATTGGCCCAATTGATCAAGGTTTGCTTGCTAAAGCACGGGATACAT
||| | | || | || ||| ||| |||||| | | || || | | | || ||||| | |||| || | ||| || |||||||| ||||| || ||||||||||||||||| ||||| || || |||||| | || || |||| | ||||||| | | |||||| || |
gaaggtggtgattagaagctatgcagcttgctatttt--ttttgttgttatacgcttgtatggtggacggaagctgatgtgtgcgtcctctatgcttttca--gGTTCTTTTCCAAAACGATTCGCCTGCAACATTACTTGCTCGTGTGATGGGCATCATTGGCGCCATAGAACAAGCTATGCTTGCACAGGGACGGGACACCT
upper sequence: GLYMA16G34510.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G17750.1 (Arabidopsis thaliana), 3'ss of exon 6
----acattgacttcacctcatctactgaaatactttattttctttgttaaatacatgcataattctctcattcttatgtgacacaagaccatgcattatatagGTCCTCTTCCAAAATGATTCCCCGGCAACATTACTTGCTCGGGTGATTGGTATAATTGGCCCAATTGATCAAGGTTTGCTTGCTAAAGCACGGGATACAT
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gtaagttccagcatcgatgataccagttaaaagctttataat-tatataatccactaagctagctaggaccctataatgtaacttgcgtctgc---ttttgcagGTTCTTTTCCAAAATGATTCTCCGGCTACTTTACTTGCAAGGGTCATCGGTATAATCGGATCAATTGACCAAGAAATGCTTGCCAAAGGACGTGATACAT
upper sequence: GLYMA16G34510.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv01s0011g01590.t01 (Vitis vinifera), 3'ss of exon 11
acattgacttcacctcatctactgaaatact-ttattttctttgttaaatacatgcataattctctcattctta---tgtgacacaagaccatgcattatatagGTCCTCTTCCAAAATGATTCCCCGGCAACATTACTTGCTCGGGTGATTGGTATAATTGGCCCAATTGATCAAGGTTTGCTTGCTAAAGCACGGGATACAT
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--agcaagat-atcttacctggtttaatgtggtcattttccttaaaactatcaattatgattc-ctggtgcaaagcgctttacataaagtttgctatgttttagGTCCTCTTCCAAAATGATTCACCAGCGACGTTACTTGCACGGGTGATTGGAATAATAGGTTCAATTGACCAAGGCATGCTTGCTAAAGGACGTGATACATMapped 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|6567092|gb|AW234719.1|AW234719EST: TTGATATCTGGTCACTTGGATGCATCTTGGCAGAACTTTGTACTGGCAAT GTCCTCTTCCAAAATGATTCC
genomic: TTGATATCTGGTCACTTGGATGCATCTTGGCAGAACTTTGTACTGGCAATgtaagatcaa ... cattatatagGTCCTCTTCCAAAATGATTCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatacatgcataattctctcattcttatgtgacacaagaccatgcattatatagGTCCTCTTCCAAAATGATTCCCCGGCAACATTACTTGCTCGGGTGATTGGTATAATTGGCCCAATTGATCAAGGTTTGCTTGCTAAAGCACGGGATACAT
attatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acattgacttcacctcatctactgaaatactttattttctttgttaaatacatgcataattctctcattcttatgtgacacaagaccatgcattatatagGTCCTCTTCCAAAATGATTCCCCGGCAACATTACTTGCTCGGGTGATTGGTATAATTGGCCCAATTGATCAAGGTTTGCTTGCTAAAGCACGGGATACAT
- - - -cttcacc
- - - - - - - - -tctactg
- - - - - - - - - - - - - - - - - - - - - - - - -acatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaccatg