Sequence
atgc intronic sequence ATGC exonic sequence...tagttggttatattgctttgttttttcttggtttaaatctagaaaatttgcttttttttttcttactaaatactaattacattttaacttctgctttcagGGTCTTGTCAAACTTGCTGATTTTGGCGTTGCTACAAAATTAACAGAGGCTGATGTTAACACTCATTCAGTTGTTGGAACACCTTACTGGATGGCCCCAG
Basic information
species | Glycine max |
transcript | GLYMA11G10810.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G10810.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv01s0011g02270.t01 (Vitis vinifera), 3'ss of exon 6
-----tagttggttatattgctttgttttttcttggtttaaatctagaaaatttgcttttttttttcttactaaatactaattacattttaacttctgctttcagGGTCTTGTCAAACTTGCTGATTTTGGCGTTGCTACAAAATTAACAGAGGCTGATGTTAACACTCATTCAGTTGTTGGAACACCTTACTGGATGGCCCCAG
|| || | ||| ||| |||| | || | || | |||| | | ||| | || | | || | |||||||||||||| ||||||||||| ||||| ||||| ||||||||||| ||||| |||||||| || ||||| |||||||| ||||| || ||||||||||| |
cattttatatgaaacttaagctcacaatttgtttggaatggtataggagcttctggatggattttcttaagtaattgct-----tgaactgatttatattttcagGGTCTTGTGAAACTTGCTGACTTTGGTGTTGCAACAAAATTAACTGAGGCAGATGTTAATACGCATTCCGTTGTTGGGACACCATATTGGATGGCCCCTG
upper sequence: GLYMA11G10810.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S131_142V6.1 (Physcomitrella patens), 3'ss of exon 6
---------------------------------------------------tagttggttatattgctt-tgttttttcttggtttaaatctagaaaatttgcttttttttttcttactaaatactaattacattttaacttctgcttt--cagGGTCTTGTCAAACTTGCTGATTTTGGCGTTGCTACAAAATTAACAGAGGCTGATGTTAACACTCATTCAGTTGTTGGAACACCTTACTGGATGGCCCCAG
|| | | || || | | | || ||| || | || || | | | | |||||| || | | || |||| || ||||| || |||||||| ||||| || |||||||| |||||||| | ||||||||||| |||||||| |||||||| |||||||| || |
gtgggttattcacggtctgagctgtgctgtctaagtttccgttcttttaattatccagctgagttactagtcctctagctctacttacatgttgaggggttttccatatgggaaacttcagac-ctaattcaatgctggttattgtccaaatagGGAGAGGTAAAACTCGCAGATTTTGGAGTTGCCACCAAATTAACCGAGGCTGACATCAACACTCATTCTGTTGTTGGTACACCTTATTGGATGGCTCCTG
upper sequence: GLYMA11G10810.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S66_286V6.1 (Physcomitrella patens), 3'ss of exon 6
--------------------------------------------tagttggttatattgctt-----tgttttttcttggtttaaatctagaaaatttgcttttttttttctt--actaaatactaattacatttt---aacttctgctttcagGGTCTTGTCAAACTTGCTGATTTTGGCGTTGCTACAAAATTAACAGAGGCTGATGTTAACACTCATTCAGTTGTTGGAACACCTTACTGGATGGCCCCAG
||| || |||| || | | | | |||| | |||| ||||||||| | | ||| ||| || | | || || || | ||||| || ||||| || |||||||| ||||| || |||||||| |||||||| | ||||||||||| |||||||| || ||||| |||||||| || |
gtagaatacttaccctttgggtcgagctgctcttaaattgcaatcttttgaataccttgccgagtaacgtgtcctgtagttttatttgtagattttttgcttttgtgtatctggaactgcatgtctgatgccttgatggaaattgtctaaacagGGGGAGGTGAAACTCGCAGATTTTGGAGTTGCCACCAAATTAACCGAGGCTGACATCAACACTCATTCTGTTGTTGGCACTCCTTATTGGATGGCTCCTGMapped 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|38193206|gb|CF922412.1|CF922412EST: GTGTTATCCATCGGGATATTAAGGGTGCAAACATATTGACAACTAAAGAG GGTCTTGTCAAACTTGCTGATTTTGGCGTTGCTACAAAATTAACAGAGGCT
genomic: GTGTTATCCATCGGGATATTAAGGGTGCAAACATATTGACAACTAAAGAGgcaagtcttc ... ctgctttcagGGTCTTGTCAAACTTGCTGATTTTGGCGTTGCTACAAAATTAACAGAGGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttgcttttttttttcttactaaatactaattacattttaacttctgctttcagGGTCTTGTCAAACTTGCTGATTTTGGCGTTGCTACAAAATTAACAGAGGCTGATGTTAACACTCATTCAGTTGTTGGAACACCTTACTGGATGGCCCCAG
cttctgctttc CT-rich tract
ttttttttttcttact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagttggttatattgctttgttttttcttggtttaaatctagaaaatttgcttttttttttcttactaaatactaattacattttaacttctgctttcagGGTCTTGTCAAACTTGCTGATTTTGGCGTTGCTACAAAATTAACAGAGGCTGATGTTAACACTCATTCAGTTGTTGGAACACCTTACTGGATGGCCCCAG
- gttggtt
- - - - - - -tgctttg