Sequence
atgc intronic sequence ATGC exonic sequencegtattattaaaatctattggtaattccttatctcatattccacatgtgttgcctgcttattctatgtccccccttatcagACAAATCCTGAGATTGTAAAAAGGTGGAGCAATGAGGTTCAGGAAGCGGTTCAATCAAGGGCAGCTCTTGTGCAATTTCATGCCCTGGCATTGCTGCACC
Basic information
species | Glycine max |
transcript | GLYMA11G12610.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G12610.2 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os07g10150.1 (Oryza sativa), 3'ss of exon 5
------------------------gtattattaaaatctattggtaattccttatctcatattccacatgtgttgcctgcttattctatgtccccccttatcagACAAATCCTGAGATTGTAAAAAGGTGGAGCAATGAGGTTCAGGAAGCGGTTCAATCAAGGGCAGCTCTTGTGCAATTTCATGCCCTGGCATTGCTGCACC
| || | ||| | || || | | | ||| |||| || || | | | || | ||||||| ||| || |||| ||||||||||||||||| |||||||| || || || || || || |||||||| |||||||||||||| || | || ||||
gtatgtgcaaaacgtttagtctttgcctttatgcaattgcatattacagccagacccaaatccttacaaatgtt--ttgtttgtatggt-tttattctgagcagACAAGTCCAGAAGTTGTGAAAAGGTGGAGCAATGAAGTTCAGGAGGCTGTACAGTCGAGAGCTGCTCTTGTTCAATTTCATGCCCTTGCTCTTCTTCACC
upper sequence: GLYMA11G12610.2 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os03g12590.1 (Oryza sativa), 3'ss of exon 5
gtattattaaaatctattggtaattccttatctcatattccacatgtgttgcctg----cttattctatgtccccccttatcagACAAATCCTGAGATTGTAAAAAGGTGGAGCAATGAGGTTCAGGAAGCGGTTCAATCAAGGGCAGCTCTTGTGCAATTTCATGCCCTGGCATTGCTGCACC
| | || ||| || | | || | | || | | | | || | | ||| ||||||| || || || ||||| |||||||| || || |||||||| ||||||||||| || |||||||||||||||| ||| || | || ||||
---------gtacacttctatagttctatacgaaaaaaaacataattcttttcggaagtcaaaaactgtacttattatatgcagGCAAATCCAGAAATCGTGAAAAGATGGAGCAACGAAGTGCAGGAAGCTGTTCAATCAAGATTTGCACTTGTGCAATTTCATGGCCTAGCTCTTCTTCACC
upper sequence: GLYMA11G12610.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G178618_T01 (Zea mays), 3'ss of exon 5
------------------------gtattattaaaatctattggtaattccttatctcatattccacatgtgttgcctgcttattctatgtccc--cccttatcagACAAATCCTGAGATTGTAAAAAGGTGGAGCAATGAGGTTCAGGAAGCGGTTCAATCAAGGGCAGCTCTTGTGCAATTTCATGCCCTGGCATTGCTGCACC
| | | || ||||| || | | | | | || | | || || |||| || ||||| | ||| || |||||||||| ||||||||||| ||||| || || || || ||||| || ||||||||||||||||||||||| || | || ||||
gtatgtcctgcagttatattttgtgctccagttggatatattgttactagttggtgcagctatagatatttttattatgttttccacatgtttgtattattggcagACGAGTCCGGAAGTTGTAAAAAGATGGAGCAATGAAGTTCAAGAGGCTGTGCAGTCAAGAGCTGCTCTTGTGCAATTTCATGCCCTTGCTCTTCTTCACC
upper sequence: GLYMA11G12610.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G036034_T01 (Zea mays), 3'ss of exon 5
-----------gtattattaaaatctattggtaattccttatctcatattccacatgtgttgcctgcttattctatgtccc----cccttatcagACAAATCCTGAGATTGTAAAAAGGTGGAGCAATGAGGTTCAGGAAGCGGTTCAATCAAGGGCAGCTCTTGTGCAATTTCATGCCCTGGCATTGCTGCACC
| | | || ||||| || | || | || || | || | | ||| | | | || ||||||| ||| || |||||||||| ||||||||||| ||||| || || || || ||||| || ||||||||||| ||||||||||| || | || ||||
gtatgtcctgtgctccacttggatatattgttactagtttgtggcagctttagttcttttttattatgttttccacatgtttgtactattggcagACAAGTCCGGAAGTTGTAAAAAGATGGAGCAATGAAGTTCAAGAGGCTGTGCAGTCAAGAGCTGCTCTTGTGCAGTTTCATGCCCTTGCTCTCCTTCACC
upper sequence: GLYMA11G12610.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 5
--------------------gtattattaaaatctattggtaattccttatctcatattcc-acatgtgttgcctgcttattctatgtccccccttatcagACAAATCCTGAGATTGTAAAAAGGTGGAGCAATGAGGTTCAGGAAGCGGTTCAATCAAGGGCAGCTCTTGTGCAATTTCATGCCCTGGCATTGCTGCACC
| || || | |||||| || | ||| | || || ||||| | | | ||| | ||||||| || ||||| || | ||||||||| ||||| || |||||||| ||||||||||||||||| |||||||||||||||||||| || | ||||| |
gtacaattgggttgtgtgtagattttttttattctatttata--tatttaaattatcctcttacatgctctaataatatgat-tattatttttttggatagACAAACCCAGAGATAGTGAGAAGGTGGAGTAATGAAGTACAGGAAGCTGTTCAATCAAGGGCAGCACTTGTGCAATTTCATGCCCTAGCTCTCCTGCATCMapped 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|120529501|gb|EH257635.1|EH257635EST: ATCCAGTCGTTGCAAGTGCAGCCCTGGTTAGCGGCATTCATATACTCCAG ACAAATCCTGAGATTGTAAAAAGGTGGAGCAATGAGGTTCAGGAAGCGGTT
genomic: ATCCAGTCGTTGCAAGTGCAGCCCTGGTTAGCGGCATTCATATACTCCAGgtattattaa ... cccttatcagACAAATCCTGAGATTGTAAAAAGGTGGAGCAATGAGGTTCAGGAAGCGGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccttatctcatattccacatgtgttgcctgcttattctatgtccccccttatcagACAAATCCTGAGATTGTAAAAAGGTGGAGCAATGAGGTTCAGGAAGCGGTTCAATCAAGGGCAGCTCTTGTGCAATTTCATGCCCTGGCATTGCTGCACC
ttctatgtcccccctt CT-rich tract
ttattctat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattattaaaatctattggtaattccttatctcatattccacatgtgttgcctgcttattctatgtccccccttatcagACAAATCCTGAGATTGTAAAAAGGTGGAGCAATGAGGTTCAGGAAGCGGTTCAATCAAGGGCAGCTCTTGTGCAATTTCATGCCCTGGCATTGCTGCACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC