Sequence
atgc intronic sequence ATGC exonic sequenceAGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGGGAGGAGAGGTTGCTTGTGGCAGAATATATGCCCAATGAAACACTTGCAAAGCACCTTTTTCATTgtaagagctccttttatgcattttttaatcctttaagtgttgaacatctgattggtatgtcttaaatttaataatatgtagtttacggttttgttgcctt...
Basic information
species | Glycine max |
transcript | GLYMA03G01300.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G01300.2 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os04g58750.2 (Oryza sativa), 5'ss of exon 4
-AGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGGGAGGAGAGGTTGCTTGTGGCAGAATATATGCCCAATGAAACACTTGCAAAGCACCTTTTTCATTgtaagagctccttttatgcattttttaatcctttaagtgttgaacatctgattggtatgtcttaaatt--taataatatgtagtttacggttttgttgcctt-
||||| |||| ||||||||| |||||||| ||||| || ||||| |||||||| |||||||| ||||||||||| ||||| || ||||| ||||| |||||| || || | || || | || | ||| || | | || || | | |||| ||| | ||| | |||| || ||
AAGGTTAGCAA-TTTGCTTGGCTGTTGCTGCGAAGGTGACGAGAGATTGCTTGTTGCAGAATACATGCCCAATGACACACTAGCGAAGCATCTTTTCCATTgtgagt-tgccatgcatttcttgtcgcatgccttagaacttttatgtt--gctgtcatcacatcaattagtaactgggttctgttcatggttacatttccgca
upper sequence: GLYMA03G01300.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G382104_T02 (Zea mays), 5'ss of exon 4
AGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGGGAGGAGAGGTTGCTTGTGGCAGAATATATGCCCAATGAAACACTTGCAAAGCACCTTTTTCATTgtaagagctccttttatgcattttttaatcctttaagtgttgaaca-tctg-attggtatgtcttaaatttaataatatgtagtttacggttttgttgcctt--
||||||||||||||||||||||||||||||||||| || ||||| |||||||| |||||||| ||||||||||| || || || ||||||||||| |||||| ||| || || | ||| || | | | |||| | || ||| || ||| || | | | | | || | | | ||
AGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGCGATGAGAGATTGCTTGTTGCAGAATACATGCCCAATGATACGCTAGCGAAGCACCTTTTCCATTgt--gagttctttgaaaacatagttatgtttagcat-tacaaaacaatttgcattcata-atctgttgcttgactacaaggaattaaggatgatgccatgacat
upper sequence: GLYMA03G01300.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G055561_T01 (Zea mays), 5'ss of exon 5
AGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGGGAGGAGAGGTTGCTTGTGGCAGAATATATGCCCAATGAAACACTTGCAAAGCACCTTTTTCATTgtaagagctccttttatgcatttt---ttaatcct-ttaagtgttgaacatctgattgg---tatgtcttaaatt----taataatatgtagtttacggttttgttgcctt------
||||| ||||| || || ||||||||||| |||||||| ||||||||||| || || || || || ||||| || ||| ||| | || | |||| | ||| | | || || || | | || || || | | | | | || || | | | || ||
------------------------TGCTGCGAAGGTGATGAAAGGTTGCTTGTTGCAGAATACATGCCCAATGATACGCTCGCGAAACATCTTTTCCACTGT--GAGTCCTTTGAAAACATTCTATgttagttatgtttagcattacaaaattgtcggggaccataattaggggtaccctcaagacgcctaattctcagctg-gtaacccccatcag
upper sequence: GLYMA03G01300.2 (Glycine max), 5'ss of exon 4
lower sequence: AT1G01740.1 (Arabidopsis thaliana), 5'ss of exon 4
AGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGGGAGGAGAGGTTGCTTGTGGCAGAATATATGCCCAATGAAACACTTGCAAAGCACCTTTTTCATTgtaagagctccttttatgcattttttaatcctttaagtgttgaacatctgattggtatgtcttaaatttaataatatgtagtttacggttttgttgcctt----
|| |||| ||||| || |||| |||||||||||| | |||||||| |||||||| || | |||||| ||||| ||||| || || |||||||| || ||||| | |||| ||| ||| || | | || ||| | | ||| ||| || | || | |||| | ||
AGAATGGCCAATTTACTCGGTTATTGCTGTGAAGGCGGCGAGAGGTTACTTGTGGCTGAGTTTATGCCTAATGAGACACTAGCCAAACACCTTTTCCACTgtaaaaag----aaaatgc---ctttgatcaattgtctttcgattttctttcaagattttctcc-------taagatttgcttaccacttttatcatctaccag
upper sequence: GLYMA03G01300.2 (Glycine max), 5'ss of exon 4
lower sequence: AT4G00710.1 (Arabidopsis thaliana), 5'ss of exon 4
AGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGGGAGGAGAGGTTGCTTGTGGCAGAATATATGCCCAATGAAACACTTGCAAAGCACCTTTTTCATTgtaagagctccttttatgcattttttaatcctttaagtgttgaacatctgattggtatgtcttaaatttaataatatgta-gtttacggttt-tgttgcctt
|| |||| ||||| || || |||||||| ||||| || |||||||| ||||| ||||| | |||||| ||||||||||| || || ||||||||||| ||| ||| | ||| | | | | || | || | | | | | | || | ||||| | | || | | || || ||| ||| || | |
AGAATGGCCAATTTACTCGGATGTTGCTGCGAAGGTGACGAGAGGTTACTTGTAGCAGAGTTTATGCCTAATGAAACACTAGCCAAACACCTTTTTCACTgtgagaa--tcatttttcctatatatagcctttcatttaataatcttgccat--gctagtcttggaagttatggtgtctaagtgtactttttatgctactag
upper sequence: GLYMA03G01300.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv15s0046g02900.t01 (Vitis vinifera), 5'ss of exon 4
AGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGGGAGGAGAGGTTGCTTGTGGCAGAATATATGCCCAATGAAACACTTGCAAAGCACCTTTTTCATTgtaagagctccttttatgcattttttaatcctttaa-gtgttgaacatctgattggtatgtcttaaatttaataatatgtagtttacggttttgttgcctt-----
|| ||||||||||||||||||||||| ||||| | | || |||||||| ||||| ||||||||||||||||||||||||||||| |||||||| ||||||||| ||| | || | | | | ||| | | || | || | |||| ||| | || | | || | | ||||| |
AGATTGGCAAATTTGCTTGGTTGTTGTTGTGAGGATAATGAAAGGTTGCTGGTGGCGGAATATATGCCCAATGAAACACTTGCAAAACACCTTTTCCATTgtaag----tttttggtacaggaataactgttgtaaagctctcaatggttctttagcatgtgttaga--agatgttttttaacctttgcacttgttcctgatgtatMapped 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|151409998|gb|EV279806.1|EV279806EST: TGTGGTAGAATATATGCCCAATGAAACACTTGCAAAGCACCTTTTTCATT GGGAAACACAACCTATGAAATGGGCAATGCGACTAAGAGTTGTTCTACATC
genomic: TGTGGCAGAATATATGCCCAATGAAACACTTGCAAAGCACCTTTTTCATTgtaagagctc ... tctaaatcagGGGAAACACAACCTATGAAATGGGCAATGCGACTAAGAGTTGTTCTACATC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGGGAGGAGAGGTTGCTTGTGGCAGAATATATGCCCAATGAAACACTTGCAAAGCACCTTTTTCATTgtaagagctccttttatgcattttttaatcctttaagtgttgaacatctgattggtatgtcttaaatttaataatatgtagtttacggttttgttgcctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG