Sequence
atgc intronic sequence ATGC exonic sequenceTTGTATTGCAGCAGCTGAGATGCTGTGGGGTCCTGGAAGTAGTTCGAATATCGAGATCTGGCTTTCCAACAAGAATGTTTCACCAAAAGTTTGCTAGAAGgtataataacagaaaactgatgatttatatcctttcaaatactatcaccttccacattccttctgccctggtgtttttacatgtgtctatccttgttcttattggcttgggtgtgttgaatcag
Basic information
species | Glycine max |
transcript | GLYMA09G42180.1 |
intron # | 17 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G42180.1 (Glycine max), 5'ss of exon 17
lower sequence: AT3G19960.2 (Arabidopsis thaliana), 5'ss of exon 21
-----------------------------------------------------------TTGTATTGCAGCAGCTGAGATGCTGTGGGGTCCTGGAAGTAGTTCGAATATCGAGATCTGGCTTTCCAACAAGAATGTTTCACCAAAAGTTTGCTAGAAGgt-ataataacagaaaactgatgatttatatcctttcaaatactatcaccttccacattccttctgccctggtgtttttacatgtgtctatccttgttcttattggcttgggtgtgttgaatcag
|||| || |||||||| ||||| ||||||||||| ||||| |||||||| || | ||||| ||||| |||||||||| ||| || || ||| | |||||| | ||| || | || ||| ||
TTTCATTCGCTGTATCAAGCCAAATAACATCCAGTCTCCCGGGGTGTATGAGCAAGGGCTTGTTTTACAGCAGCTAAGATGTTGTGGGGTCCTAGAAGTGgttcgaatttcacggtctggatttcctacaagaatgtctcatcagaaattttcccgaaggtgacaatgcca-----ttcatcattagtag----------------------------------------------------------------------------------------------
upper sequence: GLYMA09G42180.1 (Glycine max), 5'ss of exon 17
lower sequence: AT1G50360.1 (Arabidopsis thaliana), 5'ss of exon 19
TTGTATTGCAGCAGCTGAGATGCTGTGGGGTCCTGGAAGTAGTTCGAATATCGAGATCTGGCTTTCCAACAAGAATGTTTCACCAAAAGTTTGCTAGAAGgtataataacagaaaactgatgatttatatcctttcaaatactatcaccttccacattccttctgccctggtgtttttacatgtgtctatcct---tgttcttattggcttgggtgtgttgaa--tcag
|||| || |||||||| ||||| ||||| ||||| || || ||||||||||| | ||||| ||||| || ||||||||||| || || ||||| ||||||| | | | | || | | | | || | | | || ||| | | | | || | |||||| || || | || || | || || | ||| | | ||
TTGTCTTACAGCAGCTAAGATGTTGTGGTGTCCTAGAGGTCGTTCGAATATCCCGGTCTGGATTTCCCACGAGAATGTTTCATCATAAATTTGCCCGAAGgtaacaactccatctccagttggtgcactttcattgtattgc-atgtcctcttataataggcttcccatac--tttttagttgcaataatgttgaatggtcatgctgtttttcttttgtcatactttag
upper sequence: GLYMA09G42180.1 (Glycine max), 5'ss of exon 17
lower sequence: AT3G19960.1 (Arabidopsis thaliana), 5'ss of exon 19
TTGTATTGCAGCAGCTGAGATGCTGTGGGGTCCTGGAAGTAGTTCGAATATCGAGATCTGGCTTTCCAACAAGAATGTTTCACCAAAAGTTTGCTAGAAGgt-ataataacagaaaactgatgatttatatcctttcaaatactatcaccttccacattccttctgccctggtgtttttacatgtgtc-tatccttgttcttattggcttgggtgtgttgaatcag
|||| || |||||||| ||||| ||||||||||| ||||| |||||||| || | ||||| ||||| |||||||||| ||| || || ||| | |||||| | ||| || | || ||| || | ||| ||| | || | | | | | | |||| || ||| |
TTGTTTTACAGCAGCTAAGATGTTGTGGGGTCCTAGAAGTGGTTCGAATTTCACGGTCTGGATTTCCTACAAGAATGTCTCATCAGAAATTTTCCCGAAGgtgacaatgcca-----ttcatcattagtagttgtgcaaggg-----accgtacaagcgtttcttcataagttttaatcacattgatcatattgcag-----------------------------
upper sequence: GLYMA09G42180.1 (Glycine max), 5'ss of exon 17
lower sequence: Vv10s0071g00210.t01 (Vitis vinifera), 5'ss of exon 18
TTGTATTGCAGCAGCTGAGATGCTGTGGGGTCCTGGAAGTAGTTCGAATATCGAGATCTGGCTTTCCAACAAGAATGTTTCACCAAAAGTTTGCTAGAAGgtataataacagaaaactgatgatttatatcctttcaaatactatcac-cttccacattcc---ttctgccctggtgtttttacatgtgtctatccttgttcttattggcttgggtgt-gttgaatcag
||||| ||||||| || ||||| ||||| ||||| ||||||||| |||||||||| || ||||||||||| | |||| ||| || ||||||||||||||||| | | ||| || | | ||||| | || | | ||| | ||| | ||| |||| || | | | | | | | || || | | | |||| ||| | | |||
TTGTACTGCAGCAACTAAGATGTTGTGGAGTCCTAGAAGTAGTTAGAATATCGAGGTCGGGCTTTCCAACTCGGATGTCTCATCAGAAGTTTGCTAGAAGgtacac--atagatgac-aaggttttat----tatctagttgtattgcacttataaattttgtattcttttcttaagaatctgtttttattttattttattttcccttgtttggttgttaattgaccagMapped 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|26056190|gb|CA799104.1|CA799104EST: TCGAGATCTGGCTTTCCAACAAGAATGTTTCACCAAAAGTTTGCTAGAAG ATATGGTTTTCTCCTCCTTGATCATGTTGCTTCTCAGGATCCGCTTAGTGT
genomic: TCGAGATCTGGCTTTCCAACAAGAATGTTTCACCAAAAGTTTGCTAGAAGgtataataac ... gttgaatcagATATGGTTTTCTCCTCCTTGATCATGTTGCTTCTCAGGATCCGCTTAGTGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTGTATTGCAGCAGCTGAGATGCTGTGGGGTCCTGGAAGTAGTTCGAATATCGAGATCTGGCTTTCCAACAAGAATGTTTCACCAAAAGTTTGCTAGAAGgtataataacagaaaactgatgatttatatcctttcaaatactatcaccttccacattccttctgccctggtgtttttacatgtgtctatccttgttcttattggcttgggtgtgttgaatcag
- - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC