Sequence
atgc intronic sequence ATGC exonic sequenceCTTCGTTTTCCAGTGGAGCGTCATCAGATCTCTCTTGTCCATCCTTCAGTGGTGGGCGTTCAATGTCACCGTCATCATCGTCAACAAGTGGATCTTCCAGgttcctgttttctctttctccttctcctcctcctccttctattttcaatttcgaaataatcaccaattcgccttttgttttctaattcgcgagatttgtt...
Basic information
species | Glycine max |
transcript | GLYMA06G11850.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G11850.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os04g59550.1 (Oryza sativa), 5'ss of exon 2
CTTCGTTTTCCAGTGGAGCGTCATCAGATCTCTCTTGTCCATCCTTCAGTGGTGGGCGTTCAATGTCACCGTCATCATCGTCAACAAGTGGATCTTCCAGgttcctgttttctctttctcctt---ctcctcctcctccttctattttcaatttcgaaataatcaccaattcgcct---tttgttttctaattcgcgagatttgtt
| || | | || | | | | || || ||||||| |||||||||| ||||| ||||||||||||||| |||||||||||||||||||||| | ||| |||| ||||| | ||||| | |||||| || || | ||| || | |||| || || | || || | |
CACCGGCGGTGGGCTGGGCAACCTGCGCGCGCTGCTGGCCATCCTCCAGTGGTGGGGCTTCAACGTCACCGTCATCATCATCAACAAGTGGATCTTCCAGgtccagatttcctctctctccctggatccctccccttccttcctttctct-ctccgattcaagattccattctcccctcttcaatggatatcctgccaaac-----
upper sequence: GLYMA06G11850.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G040033_T01 (Zea mays), 5'ss of exon 1
CTTCGTTTTCCAGTGGAGC-GTCATCAGATCTCTCTTGTCCATCCTTCAGTGGTGGGCGTTCAATGTCACCGTCATCATCGTCAACAAGTGGATCTTCCAGgttcctgttttctc-tttctccttctcctcctcct--ccttctattttcaatttcgaaataatcaccaat--tcgccttttgttttctaattcgcgagatttgtt
| | | || || |||| | | | | ||||||| |||||||||| ||||| ||||||||||||||| |||||||||||||||||||||| || || | || ||| | |||| ||||| |||| |||| | ||| ||| | ||| | | | | | || | |||
-CAAGATGGGGAACGGCGCCACCATCCGCGCGGTGCTCGCCATCCTCCAGTGGTGGGGATTCAACGTCACCGTCATCATCATCAACAAGTGGATCTTCCAGgtcccgtccctcgcgcttgctcttgtttaaatcctggtcttctttttttg-tttcaattcaatttccagagatggccatgtatgtagttatatat-atattc---
upper sequence: GLYMA06G11850.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G127591_T03 (Zea mays), 5'ss of exon 1
CTTCGTTTTCCAGTG-GAGCGTCATCAGATCTCTCTTGTCCATCCTTCAGTGGTGGGCGTTCAATGTCACCGTCATCATCGTCAACAAGTGGATCTTCCAGgtt--cctgttttctctttctccttctcc-tcctcctccttctat---tttcaatttcgaaataatcaccaattcgccttttg-ttttctaattcgcgagatttgtt------------------------------
|| || | | || | | | | | | ||||||| |||||||||| ||||| ||||||||||||||| | ||||||||||||||||||||| || | || | || |||| || ||| || | | | | || || | || || || || | |||||| || | | || |
-GGCGCCGGCCGGCCTGGGCACCCTGCGCGCGGTGCTCGCCATCCTCCAGTGGTGGGGCTTCAACGTCACCGTCATCATCATGAACAAGTGGATCTTCCAGgtttacccgcattatattctagcttccccatccatcttccgccgcggatctggatgtcagatgcttctcctgcccggctgctacttttctcctttggaatatctaactaaattcgtccatactgcttaccattatag
upper sequence: GLYMA06G11850.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G127591_T01 (Zea mays), 5'ss of exon 1
CTTCGTTTTCCAGTG-GAGCGTCATCAGATCTCTCTTGTCCATCCTTCAGTGGTGGGCGTTCAATGTCACCGTCATCATCGTCAACAAGTGGATCTTCCAGgtt--cctgttttctctttctccttctcc-tcctcctccttctat---tttcaatttcgaaataatcaccaattcgccttttg-ttttctaattcgcgagatttgtt
|| || | | || | | | | | | ||||||| |||||||||| ||||| ||||||||||||||| | ||||||||||||||||||||| || | || | || |||| || ||| || | | | | || || | || || || || | |||||| || | |
-GGCGCCGGCCGGCCTGGGCACCCTGCGCGCGGTGCTCGCCATCCTCCAGTGGTGGGGCTTCAACGTCACCGTCATCATCATGAACAAGTGGATCTTCCAGgtttacccgcattatattctagcttccccatccatcttccgccgcggatctggatgtcagatgcttctcctgcccggctgctacttttctcctttggaat-------
upper sequence: GLYMA06G11850.1 (Glycine max), 5'ss of exon 1
lower sequence: AT1G77610.1 (Arabidopsis thaliana), 5'ss of exon 1
CTTCGTTTTCCAGTGGAGCGTCATCAGATCTCTCTTGTCCATCCTTCAGTGGTGGGCGTTCAATGTCACCGTCATCATCGTCAACAAGTGGATCTTCCAGgttcctgttttctctttctccttctcctcctcctccttctattttcaatttcgaaataatc--accaattcgccttttgttttctaattcgcgagatttgtt-----------------------------------------------------
|| | | | || | |||||||||| || | || ||||||||||||| |||||||| |||||||||||| | ||||| |||||||| |||||| || || | | || | | | | || ||| | | ||| | | ||| || |||| || ||| | || || |||
AATCATGGAGGAAGGAAGTATGTTCAGATCTCTATTAGCGATTCTTCAGTGGTGGGGTTTCAATGTTACCGTCATCATCATGAACAAATGGATCTTTCAGgtttcttcttaaccctagaatttttaggttttacttaattgtatttaatacccttttgatctgatctattgatctgatgttg-ctgatttg-gaatttggtttcagctttatagattggtgataaagttttgatttttttttgttgttgttgcag
upper sequence: GLYMA06G11850.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv18s0001g02970.t01 (Vitis vinifera), 5'ss of exon 1
CTTCGTTTTCCAGTGGAGCGTCATCAGATCTCTCTTGTCCATCCTTCAGTGGTGGGCGTTCAATGTCACCGTCATCATCGTCAACAAGTGGATCTTCCAGgttcctgttttctctttctccttctcctcctcctccttctattttcaatttcgaaataatcaccaattcgcc--ttttgttttctaat-tcgcgagatttgtt
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TCTTCTTTGCCAGTGGAGCGCGTTTAGATCTCTGCTTGCCATCCTTCAATGGTGGGGGTTCAATGTCACCGTGATTATCATGAACAAGTGGATCTTTCAGgtttgctttctgcttttcagattctcaaa-tcccccctctttcggcttttgtcgaatggatttcatttccttaattttgttttattctgtttctggatgtg--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|193406355|gb|FK373004.1|FK373004EST: GGTGGGCGTTCAATGTCACCGTCATCATCGTCAACAAGTGGATCTTCCAG AAATTGGATTTCAAGTTTCCCCTATCAGTTTCCTGTGTCCACTTTATCTGT
genomic: GGTGGGCGTTCAATGTCACCGTCATCATCGTCAACAAGTGGATCTTCCAGgttcctgttt ... tttgttacagAAATTGGATTTCAAGTTTCCCCTATCAGTTTCCTGTGTCCACTTTATCTGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTTCGTTTTCCAGTGGAGCGTCATCAGATCTCTCTTGTCCATCCTTCAGTGGTGGGCGTTCAATGTCACCGTCATCATCGTCAACAAGTGGATCTTCCAGgttcctgttttctctttctccttctcctcctcctccttctattttcaatttcgaaataatcaccaattcgccttttgttttctaattcgcgagatttgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctccttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcctcc