Sequence
atgc intronic sequence ATGC exonic sequenceGATAAGGAATTGTTTATCTCAATTGTATGCCAAAGACATCACTCCTGATGATAAGCAGGAGCTTGATGAGGCTCTACAAAGGGAGgtgagtgtcaaaacctttaggattagtttgatgttttgccaaactgcaacaagtaaccattactttttttttcatcacatcaatgccttcgtttggagtt...
Basic information
species | Glycine max |
transcript | GLYMA13G34560.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G34560.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os08g27840.1 (Oryza sativa), 5'ss of exon 3
GATAAGGAATTGTTTATCTCAATTGTATGCCAAAGACATCACTCCTGATGATAAGCAGGAGCTTGATGAGGCTCTACAAAGGGAGgtgag--tgtcaaaacctttag-gattagtttgatgttttgccaaactgcaacaagtaaccattactttttttttcatc-----acatcaatgccttcgtttggagtt------------------------------------------------------------------------------------
||||||||||||||| |||| | || | || || ||||| || |||||||| |||||||||||||||||||| || |||||||| || |||| | | || | ||| || ||| | ||| | | | |||| | || | || | | | || | |
GATAAGGAATTGTTTGGTTCAACTATACTCAAAGGATATCACACCAGATGATAAACAGGAGCTTGATGAGGCTCTCCAGAGGGAGgtaagataatcaagttaatcactgactcatttatagtcttgattttttttttcaaattgtatgtgccttttcgattatttatagaaattataaattactttcagcatgatgctcaacatgccagattttgtgctccaactaaatttattaatgcattaataaggtgaatcagaacatgttcttatttttcag
upper sequence: GLYMA13G34560.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os09g14670.1 (Oryza sativa), 5'ss of exon 3
GATAAGGAATTGTTTATCTCAATTGTATGCCAAAGACATCACTCCTGATGATAAGCAGGAGCTTGATGAGGCTCTACAAAGGGAGgtgagtgtcaaaacctttaggattagttt---gatgttttgc-caaactgcaacaagtaaccattactttttttttcatcacatcaatgccttcgtttggagtt------------
||| |||| ||| | ||| | ||| | || || |||||||| ||||| ||||| ||||||||||||||||| || || ||||| ||| || | ||| | | | || ||| ||||| | | || || | || | | | || |||| ||| || |
GATTCGGAACTGTCTGGTTCAGCTTTATTCAAAGGATATCACTCCAGATGACAAGCAAGAGCTTGATGAGGCTCTCCAGAGAGAGgtacttgttgcaaacattatgttcatttacaaaatgctttgcattattttcagcatgaggtcagaaagatccataat-ccattcttatgc-ttcacctgacatcctattattttag
upper sequence: GLYMA13G34560.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G473001_T01 (Zea mays), 5'ss of exon 3
GATAAGGAATTGTTTATCTCAATTGTATGCCAAAGACATCACTCCTGATGATAAGCAGGAGCTTGATGAGGCTCTACAAAGGGAGgtgagtgtcaaaacctttaggattagtttgatgttttgccaaactgcaacaagtaaccattactttttttttcatcacatcaatgccttcgtttggagtt------
|||| | || ||||| |||| | || | ||||| |||||||| |||||||||||||| |||||||||||||| ||||| ||||| | | || || | | | || | || || | | |||| || || || | || | ||| ||| | | ||
GATACGCAACTGTTTGGTTCAACTCTACTCAAAAGATATCACTCCGGATGATAAGCAGGAACTTGATGAGGCTCTGCAAAGAGAGgtacttctttcaatctaattttattacctaaaattctttgaagcttgagaccaaagagattaattcttaatttcttacctgaatacctctctctttctttttcaag
upper sequence: GLYMA13G34560.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G110714_T01 (Zea mays), 5'ss of exon 3
GATAAGGAATTGTTTATCTCAATTGTATGCCAAAGACATCACTCCTGATGATAAGCAGGAGCTTGATGAGGCTCTACAAAGGGAGgtgagt-gtcaaaacctttaggattagtttgatgttttgccaaactgcaac-aagtaaccattacttttttttt--catcacatcaatgccttcgtttggagtt
|||||| || |||||| ||||| | ||||| || ||||||||||| ||||| || ||||| |||||||| || || ||||| ||||| | | | | ||| || || || |||| | ||||| | | | | | || ||| | || || |
GATAAGAAACTGTTTAACTCAACTTTATGCAAAGGACATCACTCCAGATGAGAAACAGGAACTTGATGAAGCACTTCAAAGAGAGgtaatttgcttcgatatttcggcata--ttagtgttatataaaactcgacctacgggggtacgaccgcccccacggcattatattaagaaaaagaccttctc--
upper sequence: GLYMA13G34560.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv19s0014g01390.t01 (Vitis vinifera), 5'ss of exon 3
GATAAGGAATTGTTTATCTCAATTGTATGCCAAAGACATCACTCCTGATGATAAGCAGGAGCTTGATGAGGCTCTACAAAGGGAGgtgagtgtcaaaacctttaggattagtttgatgttttgccaaactgcaacaagtaaccattactttttttttca-tcacatcaatgccttcgtttggagtt---
||| |||| |||||| | || || |||||||||||||| |||||||||||||||||||| ||||||||||||||||| || ||||| | | | | || | | | | | | | || | | |||| | | || ||| || ||| ||| | |
GATCCGGAACTGTTTAGCCCAGTTATATGCCAAAGACATTACTCCTGATGATAAGCAGGAACTTGATGAGGCTCTACAGAGAGAGgtaaatatttgtatgacatggctcaacatagacatgttcttggtt----cagttctctgttacatgagcctgcagtcatgcagatcatttctcttgaaactgccMapped 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|18730061|gb|BM525657.1|BM525657EST: ACATTACTCCTGATGATAAGCAGGAGCTTGATGAGGCTCTACAAAGGGAG ATTCAAGCTGCCTTCCGTACAGATGAAATCAGGAGGACCCCTCCAACACCA
genomic: ACATCACTCCTGATGATAAGCAGGAGCTTGATGAGGCTCTACAAAGGGAGgtgagtgtca ... gtctatgtagATTCAAGCTGCCTTCCGTACAGATGAAATCAGGAGGACCCCTCCAACACCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATAAGGAATTGTTTATCTCAATTGTATGCCAAAGACATCACTCCTGATGATAAGCAGGAGCTTGATGAGGCTCTACAAAGGGAGgtgagtgtcaaaacctttaggattagtttgatgttttgccaaactgcaacaagtaaccattactttttttttcatcacatcaatgccttcgtttggagtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT