Sequence
atgc intronic sequence ATGC exonic sequenceCACATATTTATTTTGGCTACTTTACTCTTCTGGCTTGCCATTGGTCCTCTCTGTTACAGCTGGCGTCTCTACTTCTGTTCATGTGCTTCGTGGTACCAATgtgagtcttatgtttacagctcagatctcaattatctgcatctccatccctttccatcgatatcttcatcttaagtgcataacagttcaaggccttcattgtgtgtcatag
Basic information
species | Glycine max |
transcript | GLYMA17G00310.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G00310.1 (Glycine max), 5'ss of exon 8
lower sequence: AT2G31830.1 (Arabidopsis thaliana), 5'ss of exon 6
CACATATTTATTTTGGCTACTTTACTCTTCTGGCTTGCCATTGGTCCTCTCTGTTACAGCTGGCG-TCTCTACTTCTGTTCATGTGCTTCGTGGTACCAATgtgagtcttatgt--ttacagctcagatctcaattatctg-catctccatccctttccatcgatatcttcatcttaagtgcataacagttcaaggccttcattgtgtgtcatag
| | || | |||||| ||| | | | | | ||| | | || | | | | | || | || | | | | |||| | || | |||||| || | | |||| || | || | || | |||| | ||
-----GCTCACTTGGAGGCAGTTACTCGGAGAAACGCGGATTTTAATCACATATATCGGTCAATGGTCTTCTCCAAAGGACAAAGTGTATATACTGCTGCAGCTGgtatagtgccgtacctgtttttatcttgctcgcttggcttctccacgtacttattttggcttctttattcttctggcttgcca---tgggccctttctcttgcag-----
upper sequence: GLYMA17G00310.1 (Glycine max), 5'ss of exon 8
lower sequence: AT1G05630.2 (Arabidopsis thaliana), 5'ss of exon 6
-CACATATTTATTTTGGCTACTTTACTCTTCTGGCTTGCCATTGGTCCTCTCTGTTACAGCTGGCGTCTCTACTTCTGTTCATGTGCTTCGTGGTACCAATgtgagtcttatgt--ttacagctcagatctcaattatctg-catctccatccctttccatcgatatcttcatcttaagtgcataacagttcaaggccttcattgtgtgtcatag
|||| | | | | | | || | || | || || | |||| | | | || || || | | || | || | | | | ||| | | || | | |||| ||| | | ||| || | | | || | ||| | ||
GCACACTTGGAGGCGGTTAATCGCAGAAACGCAGATTTCAATCACATTTTTCGATTGATG-----GTCTTTTCCCGAGGACAAAATCTAAGTAACGCTGCAGCTGgtatggtgccgtacctgtttttgtcttgctcacttggcttttccacatatttattttggctgctttattcttctggtttgcca---tgggccctctctcttgcag-----
upper sequence: GLYMA17G00310.1 (Glycine max), 5'ss of exon 8
lower sequence: AT1G05630.1 (Arabidopsis thaliana), 5'ss of exon 6
CACATATTTATTTTGGCTACTTTACTCTTCTGGCTTGCCATTGGTCCTCTCTGTTACAGCTGGCGTCTCTACTTCTGTTCATGTGCTTCGTGGTACCAATgtgagt-cttatgtttacagctcagatctcaattatctgcatctccatccctttccatcgatatcttcatcttaagtgcataacagttcaaggccttcattgtgtgtcatag
|||||||||||||||||| ||||| |||||||| ||||||| || ||||||| || ||||||| ||||| ||||| | | || ||| || ||| || ||||| | || || || | | | || | | |||| | || | || | | || | | |||
CACATATTTATTTTGGCTGCTTTATTCTTCTGGTTTGCCATGGGCCCTCTCTCTTGCAGCTGGTGTCTCAACTTCAGCTTATACAACAAAGAGTAACACTgtatgttcttatcatatcacctttactcctgagtttatgt-tgtttgctcctt-------aaatttgtatttaacatgtttctctgttttccag------------------
upper sequence: GLYMA17G00310.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv05s0094g01330.t01 (Vitis vinifera), 5'ss of exon 7
CACATATTTATTTTGGCTACTTTACTCTTCTGGCTTGCCATTGGTCCTCTCTGTTACAGCTGGCGTCTCTACTTCTGTTCATGTGCTTCGTGGTACCAATgtgagtcttatgtttacagctcagatctcaattatctgcatctccatccctttccatcgatat--cttcatcttaagtgcataacagttcaaggccttcattgtgtgtcatag
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-GCACATTTGG--AGGCAGTCAATCGTCGCAATGCTGATTTTGATCATATCTATCGGACCATGGTTTTCAG---CCGGTCATCAAACCTGCT-CAACACTGCAGCTGgtatggtgaaatacctgtttttgtctttgtctcttgccttcctcacatatttattttgcctggtttcttcttctggcttgcctttggtcctcactgt-tgcag---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|4283862|gb|AI440709.1|AI440709EST: CTGTTACAGCTGGCGTCTCTACTTCTGTTCATGTGCTTCGTGGTACCAAT GTTATGGGTGTCATCTCTGAAGAACCAAAACCTGATTTATCTGAAGCAGAT
genomic: CTGTTACAGCTGGCGTCTCTACTTCTGTTCATGTGCTTCGTGGTACCAATgtgagtctta ... tgtgtcatagGTTATGGGTGTCATCTCTGAAGAACCAAAACCTGATTTATCTGAAGCAGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CACATATTTATTTTGGCTACTTTACTCTTCTGGCTTGCCATTGGTCCTCTCTGTTACAGCTGGCGTCTCTACTTCTGTTCATGTGCTTCGTGGTACCAATgtgagtcttatgtttacagctcagatctcaattatctgcatctccatccctttccatcgatatcttcatcttaagtgcataacagttcaaggccttcattgtgtgtcatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG