Sequence
atgc intronic sequence ATGC exonic sequence...tgtttctttgcataactactctatgaaatatgattaagtctaatactagagttgatgttgatgactgaggaatatgcatttttgcttgattctcaaacagTGCTGCTGTATTCCACAATGCAAGTACAAGGTTCTGTGATGGAACTCGCTTTGGCCTTGGTGCAGAG
Basic information
species | Glycine max |
transcript | GLYMA07G16510.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G16510.1 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os01g62900.1 (Oryza sativa), 3'ss of exon 17
tgtttctttgcataactactctatgaaatatgattaagtctaatactag-agttgatgttgatgactgaggaatatgcatttttgcttgattctcaaacagTGCTGCTGTATTCCACAATGCAAGTACAAGGTTCTGTGATGGAACTCGCTTTGGCCTTGGTGCAGAG
| ||| ||| | | | || | | |||| || | || ||| || | | | | | | | ||| || | | | ||| ||||||||| |||||||| |||||||| ||| ||||||||||||| |||||||||| || ||||| |||
---gtgtttaactaatttcctt-tgcacaactattatgtttgccgcttttagtacatacct-taattaatggagtt--attcttctataaattgcaa-cagTGCTGCGGTATTCCATAATGCAAGCACACGGTTCTGTGATGGGGCTCGCTTTGGTCTAGGTGCTGAG
upper sequence: GLYMA07G16510.1 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os05g38150.1 (Oryza sativa), 3'ss of exon 16
----------------------------------tgtttctttgcataactactctatgaaatatgattaagtctaatactagagttgatg--ttgatgactgaggaatatgcatttttgcttgatt-ctcaaacagTGCTGCTGTATTCCACAATGCAAGTACAAGGTTCTGTGATGGAACTCGCTTTGGCCTTGGTGCAGAG
||| | || | || | ||| | |||| | | | ||||| |||| | | ||| | | || | ||| | ||||||||||||||||| || ||||||||||| || |||| |||||| |||| ||||| | ||||| |||
gtatgtttaaacattaattcccttattacttaatggttacattatttgttccctat-tgatgcacaattattttcctgtcaacttatgatgaacggatgtttaactaatgttctgttctacttctcaatttgaacagTGCTGCTGTATTTCATAATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAG
upper sequence: GLYMA07G16510.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv08s0007g01060.t01 (Vitis vinifera), 3'ss of exon 17
------tgtttctttgcataactactctatgaaatatgattaagtctaatactagagttgatgttgatgactgaggaatatgcatttttgcttgattctcaaacagTGCTGCTGTATTCCACAATGCAAGTACAAGGTTCTGTGATGGAACTCGCTTTGGCCTTGGTGCAGAG
|| | ||| | | | | ||| | | | | | || |||| || | ||| || | || | || ||||||||||| || ||||| ||||||||||| | || ||||||||| | || ||||| ||||||||||||
tacaaatgcaatggtctgtaaattgtttgagtaatttatgctaaattgttgcacatatttgtgtt---aaccttgaaatgtggctcattatctatctc---aacagTGCTGCAGTTTTCCATAATGCAAGTACCCGATTTTGTGATGGAGCACGTTTTGGACTTGGTGCAGAGMapped 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|58015871|gb|CX702613.1|CX702613EST: GTTGCAGAAGACTCTGAAGTCGCCGAAGCTTTCTTAAGTCAGGTTGACAG TGCTGCTGTATTCCACAATGCAAGTACAAGGTTCTGTGATGGAACTCGCTT
genomic: GTTGCAGAAGACTCTGAAGTCGCCGAAGCTTTCTTAAGTCAGGTTGACAGgtaaaagtag ... tctcaaacagTGCTGCTGTATTCCACAATGCAAGTACAAGGTTCTGTGATGGAACTCGCTT
EST:
gi|58016187|gb|CX702929.1|CX702929EST: GTTGCAGAAGACTCTGAAGTCGCCGAAGCTTTCTTAAGTCAGGTTGACAG TGCTGCTGTATTCCACAATGCAAGTACAAGGTTCTGTGATGGAACTCGCTT
genomic: GTTGCAGAAGACTCTGAAGTCGCCGAAGCTTTCTTAAGTCAGGTTGACAGgtaaaagtag ... tctcaaacagTGCTGCTGTATTCCACAATGCAAGTACAAGGTTCTGTGATGGAACTCGCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctagagttgatgttgatgactgaggaatatgcatttttgcttgattctcaaacagTGCTGCTGTATTCCACAATGCAAGTACAAGGTTCTGTGATGGAACTCGCTTTGGCCTTGGTGCAGAG
ttctc CT-rich tract
attttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtttctttgcataactactctatgaaatatgattaagtctaatactagagttgatgttgatgactgaggaatatgcatttttgcttgattctcaaacagTGCTGCTGTATTCCACAATGCAAGTACAAGGTTCTGTGATGGAACTCGCTTTGGCCTTGGTGCAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - tgcataa
- - - - - - - - - - ctatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - gttgatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atatgca