Sequence
atgc intronic sequence ATGC exonic sequenceAGAAGGACTGGCTATCACTGGTTGCAGTTCACAGTGACTCATGGCTGCTTGCTGTTGCTTTCTATTTTGGTGCCCGCTTTGGATTTGGTAAGAATGAAAGgtaagaatcctgttctccattatacacatgcaaaagatttcattcttattagccttatgaaattgttttattattcttgtatatttagaactttcttact...
Basic information
species | Glycine max |
transcript | GLYMA17G00630.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G00630.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G063864_T01 (Zea mays), 5'ss of exon 3
AGAAGGACTGGCTATCACTGGTTGCAGTTCACAGTGACTCATGGCTGCTTGCTGTTGCTTTCTATTTTGGTGCCCGCTTTGGATTTGGTAAGAATGAAAGgtaagaatcctgttctccattatacacatgcaaaagatttcattcttattagccttatgaaattgttttattattcttgtatatttagaactttcttact--
| || |||||| | || || ||||||||||| ||||| ||||||| || ||||||| ||||||||||| || || |||||||||| || ||| |||| | | |||| || || | | | || ||| || | || | | || | |||| | || ||| | |||| |||| |
AAAAAGACTGGTTGTCTCTAGTTGCAGTTCATAGTGATGCATGGCTCCTGTCTGTTGCATTCTATTTTGGAGCTCGTTTTGGATTTGACAAAGATGCCAGgtttgtgttttgttttc-atggcaaaggtttaattcctttttttttgctttaattcacccctttactgtatttgtgtttcccttttcgtactt-cttattgc
upper sequence: GLYMA17G00630.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G172001_T02 (Zea mays), 5'ss of exon 3
AGAAGGACTGGCTATCACTGGTTGCAGTTCACAGTGACTCATGGCTGCTTGCTGTTGCTTTCTATTTTGGTGCCCGCTTTGGATTTGGTAAGAATGAAAGgtaagaatcctgttctccattatacacatgcaaaagatttcattctta-ttagccttatgaaattgttttattattcttgtatattta---gaacttt-cttact
|||| |||||||| | || |||||||| |||||||| || ||| | || ||||||| ||||| |||||||| ||||||||||||| | | |||||| | ||| | | ||| || ||||| | |||||| | | | | || | | || | | ||| |||| ||| ||| | |||
AGAAAGACTGGCTGGCGCTAGTTGCAGTCCACAGTGATTCCTGGTTACTGTCTGTTGCATTCTACTTTGGTGCACGCTTTGGATTTGACAGAGAAACTAGgtaattcttctgctatg-attcaac-tatgca---gttttcatacccaatcattgttgtttgttccttcctatgctggcatatttttatctgaattttgcatacc
upper sequence: GLYMA17G00630.1 (Glycine max), 5'ss of exon 3
lower sequence: AT1G14510.1 (Arabidopsis thaliana), 5'ss of exon 3
AGAAGGACTGGCTATCACTGGTTGCAGTTCACAGTGACTCATGGCTGCTTGCTGTTGCTTTCTATTTTGGTGCCCGCTTTGGATTTGGTAAGAATGAAAGgtaagaatcctgttctccattatacacatgcaaaagatttcattcttattagccttatgaaattgtttt-attattcttgtatatttagaactttcttact---
| || |||||| | || ||||||||||||||||||| |||||||| | ||||||| || || |||||||| || || |||||||| |||||||| ||||||| || | ||| | | | | | | | | || | | | | || | | | || | | ||| | | || | | |
AAAAAGACTGGATTTCTTTGGTTGCAGTTCACAGTGATTCATGGCTTATCTCTGTTGCATTTTACTTTGGTGCACGTTTCGGATTTGGCAAGAATGAGAGgtaagtttctttctctgc----tcagtgttctgtgtttgttaattttgcttgtttggtaaagcttcaatgactagtatagtagctgcataattctagcatccaa
upper sequence: GLYMA17G00630.1 (Glycine max), 5'ss of exon 3
lower sequence: AT2G02470.1 (Arabidopsis thaliana), 5'ss of exon 3
AGAAGGACTGGCTATCACTGGTTGCAGTTCACAGTGACTCATGGCTGCTTGCTGTTGCTTTCTATTTTGGTGCCCGCTTTGGATTTGGTAAGAATGAAAGgtaagaatcctgttctccattatacacatgcaaaagatttcattcttattagccttatgaaattg--ttttattat-tcttgtatatttagaactttcttact--
| ||||||||| |||| |||| |||||||||||||| |||||||||||| ||||||| || || |||||||| || || |||||||| |||||||| ||||||| ||| ||||| | | | | || ||| |||| | | | |||| | | | || | | ||| ||| || || | ||
AAAAGGACTGGGTATCTTTGGTCGCAGTTCACAGTGATTCATGGCTGCTTTCTGTTGCATTTTACTTTGGTGCACGTTTCGGATTTGGCAAGAATGAGAGgtaagggtcc--ttctcaagctcagtgtttttgagtgttgcatctcaatta---tgacaatattgggtgtactcatgtgtggtaaggttataatgatcattctag
upper sequence: GLYMA17G00630.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv12s0035g01980.t01 (Vitis vinifera), 5'ss of exon 3
AGAAGGACTGGCTATCACTGGTTGCAGTTCACAGTGACTCATGGCTGCTTGCTGTTGCTTTCTATTTTGGTGCCCGCTTTGGATTTGGTAAGAATGAAAGgtaagaatcct--gttctccattatacacatgcaaaagatttcattcttattagccttatgaaattgttttattattcttgtatatttagaactttcttact--
|||| |||||| ||||||||||||| || |||||||| |||||| ||||||||||||| ||||||||||||||||||||||| |||||||||| |||||||||| | | | | || || | | | | | || | | | | || | || |||| | | || || | | | | || |
AGAAAGACTGGTTATCACTGGTTGCTGTGCACAGTGATTCATGGTTGCTTGCTGTTGCATTCTATTTTGGTGCCCGCTTTGGGTTTGGTAAGAGTGAAAGgtaacactttttggaacttcactgaaactttcc---tgtctttctcaatgtcaaatttcaaatgtttttttgtgagtcatg-gtggtgaagtatctccagttct
upper sequence: GLYMA17G00630.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S371_53V6.1 (Physcomitrella patens), 5'ss of exon 3
------AGAAGGACTGGCTATCACTGGTTGCAGTTCACAGTGACTCATGGCTGCTTGCTGTTGCTTTCTATTTTGGTGCCCGCTTTGGATTTGGTAAGAATGAAAGgtaagaatcctgttctccattatacaca-tgcaaaagatttcattcttattagccttatgaaatt-gttttattattcttgtatatttagaactttcttact
|| || ||| | || ||||||| || |||||||| | |||||||| ||||||||||| |||| |||||||| | |||| ||||| || |||| || |||| | || | | | || | ||| | ||| | | || ||| | || |||| | ||||
TGCAGCGTAAAGATTGGTTGTCCTTGGTTGCTGTGCACAGTGATGCCTGGCTGCTCGCTGTTGCTTTTTATTATGGTGCCC------GGTTTGACAAGAACGAGAGgtcagctatctgtaactgttcgaacgctctttttctgtctttactctacgtgaatggtcgaagtcagggttgttagga--gcttacttagcccacctatact
upper sequence: GLYMA17G00630.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S41_170V6.1 (Physcomitrella patens), 5'ss of exon 3
------AGAAGGACTGGCTATCACTGGTTGCAGTTCACAGTGACTCATGGCTGCTTGCTGTTGCTTTCTATTTTGGTGCCCGCTTTGGATTTGGTAAGAATGAAAGgtaagaatcctgttctccattatacacatgcaaaagatttcattcttattagccttatgaaattgttttattattcttgtatatttagaactttcttact-
||||||||||| ||| ||||||| || || |||||| |||||||||| |||||||| || |||| ||||||| |||||| |||| |||||||| | | || || ||| ||| | || ||| | || | ||||| || | || || | |
TGCAGCGCAAGGACTGGCTTTCATTGGTTGCTGTACATAGTGACGCATGGCTGCTCGCTGTTGCATTTTATTACGGTGCCC------GATTTGACAAGATCGAAAGgtacgcaagacgtatgat-ttctaccatgacaagcttctagatcgcgatttgtttttacagattgtatttaagtatgcgtcagttacagatgaatgggatg
upper sequence: GLYMA17G00630.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S53_239V6.1 (Physcomitrella patens), 5'ss of exon 3
------AGAAGGACTGGCTATCACTGGTTGCAGTTCACAGTGACTCATGGCTGCTTGCTGTTGCTTTCTATTTTGGTGCCCGCTTTGGATTTGGTAAGAATGAAAGgtaagaatcctgttctccattatacacatgcaaaagatttcattcttattagccttatgaaattgttttattattct-tgtatatttagaactttcttact--
||||||||||| ||| ||||||| |||||||||||| ||||||||||||| ||||| || |||| ||||| | |||||| |||||||||||||| || || | || | | | |||| | | | | | | || || | | | | ||| | || | | |
TGCAACGCAAGGACTGGCTTTCATTGGTTGCTGTTCACAGTGACGCATGGCTGCTTGCCGTTGCGTTTTATTACGGTGCTC------GATTTGACAAGAATGAAAGgtacaaaa---gtcgtgcagtttgtatgggcaagatgatggaatgtgctaagttttccacgtatcgtatgcaagtctgcttgcgttagggatgaatgggatggMapped 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|17998805|gb|BI273657.1|BI273657EST: GCTGTTGCTTTCTATTTTGGTGCCCGTTTTGGATTTGGTAAGAATGAAAG GAAAAGGCTTTTTCAGATGATAAATGATCTGCCAACAATCTTCGAACTTGT
genomic: GCTGTTGCTTTCTATTTTGGTGCCCGCTTTGGATTTGGTAAGAATGAAAGgtaagaatcc ... atatttacagGAAAAGGCTTTTTCAGATGATAAATGATCTGCCAACAATCTTCGAACTTGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAAGGACTGGCTATCACTGGTTGCAGTTCACAGTGACTCATGGCTGCTTGCTGTTGCTTTCTATTTTGGTGCCCGCTTTGGATTTGGTAAGAATGAAAGgtaagaatcctgttctccattatacacatgcaaaagatttcattcttattagccttatgaaattgttttattattcttgtatatttagaactttcttact
- - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcaaaaga