Sequence
atgc intronic sequence ATGC exonic sequence...tatttcaattactttgtatattttggttgcttgcatcatttttacctctctgtatgggtgttattttctgataccatattaacttaaaaatttgatacagAGGGTGATGGATCAAAAATTTATGTCAGCTGCATTTCTTTCCGGGATCCAGTTTGTGAGGATATTGCAGAGGCCTACCGGATTCAGGCAAATTCATATGC
Basic information
species | Glycine max |
transcript | GLYMA08G04510.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G04510.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os01g39380.1 (Oryza sativa), 3'ss of exon 2
----------------------------------------------------tatttcaattactttgtatattttggttgcttgcatcatttttacctctctgtatgggtgt-tattttctgataccatattaacttaaaaatttgatacagAGGGTGATGGATCAAAAATTTATGTCAGCTGCATTTCTTTCCGGGATCCAGTTTGTGAGGATATTGCAGAGGCCTACCGGATTCAGGCAAATTCATATGC
|||||| || || | | | | | || || | | | ||| ||| || | || || | | || | |||||| ||||| |||||||||||||| || || ||| | || ||||||||| ||||||| |||||| || || |||| |||| |||||| || | |||
gtgcatgcaacggttgttcagattgatgatcctgtcgaaggcttgaagctgatatttcctaaaccttttgagactgtttcattcttctagttaaaactgttattggttactgtatatagattgctcccttacctttgttctcacttcttgtagAGGGAGATGGCTCAAAAATTTATGTTAGTTGTATTGCATTTCGGGATCCAATTTGTGAAGATATTCTTGAAGCTTACCAAATTCCGGCAAACTCTTTTGC
upper sequence: GLYMA08G04510.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G49040.2 (Arabidopsis thaliana), 3'ss of exon 2
tatttcaattactttgtatat---tttggttgcttgcatcatttttacctct-ctgta-tgggtgttatttt-ctgataccatattaacttaaaaatttgatacagAGGGTGATGGATCAAAAATTTATGTCAGCTGCATTTCTTTCCGGGATCCAGTTTGTGAGGATATTGCAGAGGCCTACCGGATTCAGGCAAATTCATATGC
| || | ||| || | || | ||| || | | | | | |||| |||||| | | || ||||| || |||| || ||| ||||||||||||||||||||||| | |||||| |||||| | || ||||||| ||| |||||||||||| || || || || | | | | ||| |||| ||
--tctctgccatgttggatttaagttggtttgttttgaatacacctgctttaactgtggtgggtgatctcttactgattttatcttaat----aatttttgcacagAGGGTGATGGATCAAAAATATTTGTCAGTTGCATTGCATTTCGGGATCGAGTCTGTGAGGATATTATTGAAGCTTATCGCTTACCGCCGAATACATACGC
upper sequence: GLYMA08G04510.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv17s0000g03950.t01 (Vitis vinifera), 3'ss of exon 2
tatttcaattactttgtata--ttttggttgcttgcatcatttttacctctctgtatgggtgttattttctgataccatattaact-taaaaatttgatacagAGGGTGATGGATCAAAAATTTATGTCAGCTGCATTTCTTTCCGGGATCCAGTTTGTGAGGATATTGCAGAGGCCTACCGGATTCAGGCAAATTCATATGC
| | |||| | || || | |||| | | || | | | | | | | |||| | || | || | |||||||||| | ||||||||||||| || ||||||||||| ||||||||| |||| || |||||||| |||| |||||||||||||| || || |||| ||||||| | |||
-ctgttaatttccttttaaaacttttaatagttttgttttatcatgcttgattattcaattgtt--cacccaattttttgtttgttgtaaaaatttgttgcagAGGGTGATGGTTCTAAAATTTATGTTAGCTGCATTGCTTTTCGAGATCCAGTCAGTGATGATATTGCAGAGGCTTATCGTATTCCCCCAAATTCCTTTGCMapped 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|209729795|gb|BW658600.1|BW658600EST: TTCCAATGATCCTGCCTCGTTTCCGCGGAGCTATCCGATTGTTTTGACCG AGGGTGATGGATCAAAAATTTATGTCAGCTGCATTTCTTTCCGGGATCCAG
genomic: TTCCAATGATCCTGCCTCGTTTCCGCGGAGCTATCCGATTGTTTTGACCGgtatgcttgc ... tttgatacagAGGGTGATGGATCAAAAATTTATGTCAGCTGCATTTCTTTCCGGGATCCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctctctgtatgggtgttattttctgataccatattaacttaaaaatttgatacagAGGGTGATGGATCAAAAATTTATGTCAGCTGCATTTCTTTCCGGGATCCAGTTTGTGAGGATATTGCAGAGGCCTACCGGATTCAGGCAAATTCATATGC
ataccatattaactta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatttcaattactttgtatattttggttgcttgcatcatttttacctctctgtatgggtgttattttctgataccatattaacttaaaaatttgatacagAGGGTGATGGATCAAAAATTTATGTCAGCTGCATTTCTTTCCGGGATCCAGTTTGTGAGGATATTGCAGAGGCCTACCGGATTCAGGCAAATTCATATGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - gcttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - -gggtgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatacc