Sequence
atgc intronic sequence ATGC exonic sequence...agtcagttagctcaatattttcctgattactgttcctcatgatgattcaaatcctttttgaagtgtgcctgtttcattttagttactatgatgttttcagGTAGAGGCAACAATTGAGTATATATGTCGGAATGAAGCTGGTGGAGCAATTCTTGTATTTCTCACTGGCTGGGATGAAATTTCTAAGCTGCTTGACAAAC
Basic information
species | Glycine max |
transcript | GLYMA10G10180.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G10180.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G119671_T01 (Zea mays), 3'ss of exon 2
agtcagttagctcaatattttcctgattactgttcctcatgatgattcaaatccttttt--gaagtgtgcctgtttc-attttagttactatgatgttttcagGTAGAGGCAACAATTGAGTATATATGTCGGAATGAAGCTGGTGGAGCAATTCTTGTATTTCTCACTGGCTGGGATGAAATTTCTAAGCTGCTTGACAAAC
|||| | | | | |||| | || | | | | || | | ||| | |||| | | || ||| |||| |||| || |||||||||||||| ||||| ||||||| | || ||||| ||||| || || |||||||||||||||||||| ||||| || |||||
tgtca--catttgtgcactagaactattatttgaacttaatacactgctaaccatacccaggaaaaatagttgttgctaacacctctatgttgacatttt-agGTGGAAAGTACAATTGAGTATATTTGTCGCTATGAAGCAGAAGGTGCAATCCTTGTGTTCCTTACTGGCTGGGATGAAATTTCGAAGCTTCTGGACAAGA
upper sequence: GLYMA10G10180.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G399212_T01 (Zea mays), 3'ss of exon 11
agtca-gttagctcaatattttcctgattactgttcctcatgatgattcaaatcctttttgaagtgtgcctgtttcattttagttactatgatgttttcagGTAGAGGCAACAATTGAGTATATATGTCGGAATGAAGCTGGTGGAGCAATTCTTGTATTTCTCACTGGCTGGGATGAAATTTCTAAGCTGCTTGACAAAC
|||| || | || | | ||| | | || | || | || | | | || ||| |||| |||| || |||||||| ||||| ||||| ||||||| | || ||||| ||||| || || |||||||||||||||||||| ||||| || |||||
tgtcacatttgtgcaccagaactattatttgaacttaatacactgctaaccatacccaggaaaaatagttgctgctaacacctctatgttgacatttt-agGTGGAAAATACAATTGAATATATTTGTCGCTATGAAGCAGAAGGTGCAATCCTTGTGTTCCTTACTGGCTGGGATGAAATTTCGAAGCTTCTGGACAAGA
upper sequence: GLYMA10G10180.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G052798_T01 (Zea mays), 3'ss of exon 3
agtcagttagctcaatattttcctgattactgttcctcatgatgattcaaatccttttt--gaagtgtgcctgtttc-attttagttactatgatgttttcagGTAGAGGCAACAATTGAGTATATATGTCGGAATGAAGCTGGTGGAGCAATTCTTGTATTTCTCACTGGCTGGGATGAAATTTCTAAGCTGCTTGACAAAC
|||| | | | |||| | || | | | | || | | ||| | || | | | || ||| |||| |||| || |||||||||||||| ||||| ||||||| | || ||||| ||||| || || |||||||||| ||||||||| ||||| || || ||
tgtca--catttgtgcaccagaactattatttgaacttaatacactactaaccatacccaggaaaaataattgctgctaacacctctatgttgacatttt-agGTGGAAAGTACAATTGAGTATATTTGTCGCTATGAAGCAGAAGGTGCAATCCTTGTGTTCCTTACTGGCTGGGTTGAAATTTCGAAGCTTCTAGATAAGA
upper sequence: GLYMA10G10180.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM5G863698_T01 (Zea mays), 3'ss of exon 4
agtca-gttagctcaatattttcctgattactgttcctcatgatgattcaaatcctttttgaagtgtgcctgtttcattttagttactatgatgttttcagGTAGAGGCAACAATTGAGTATATATGTCGGAATGAAGCTGGTGGAGCAATTCTTGTATTTCTCACTGGCTGGGATGAAATTTCTAAGCTGCTTGACAAAC
|||| || | || | | ||| | | || | || | || | | | || ||| |||| |||| || |||||||||||||| |||| ||||||| | || ||||| ||||| || || | |||||||||||||||||| ||||| || |||||
tgtcacatttgtgcaccagaactattatttgaacttaatacactgctaaccatacccaggaaaaatagttgctgctaacacctctatgttgacatttt-agGTGGAAAGTACAATTGAGTATATTTGTCACTATGAAGCAGAAGGTGCAATCCTTGTGTTCCTTATTGGCTGGGATGAAATTTCGAAGCTTCTGGACAAGA
upper sequence: GLYMA10G10180.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G381470_T01 (Zea mays), 3'ss of exon 8
agtca-gttagctcaatattttcctgattactgttcctcatgatgattcaaatcctttttgaagtgtgcctgtttcattttagttactatgatgttttcagGTAGAGGCAACAATTGAGTATATATGTCGGAATGAAGCTGGTGGAGCAATTCTTGTATTTCTCACTGGCTGGGATGAAATTTCTAAGCTGCTTGACAAAC
|||| || | || | | ||| | | || | || | || | | | || ||| |||| |||| || |||||||||||||| | ||| ||||||| | || ||||| ||||| || || |||| ||||||||||||||| ||||| || |||||
tgtcacatttgtgcaccagaactattatttgaacttaatacactgctaaccatacccaggaaaaatagttactgctaacacctctatgttgacatttt-agGTGGAAAGTACAATTGAGTATATTTATCGCTATGAAGCAGAAGGTGCAATCCTTGTGTTCCTTACTGACTGGGATGAAATTTCGAAGCTTCTGGACAAGA
upper sequence: GLYMA10G10180.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G395467_T01 (Zea mays), 3'ss of exon 3
agtca-gttagctcaatattttcctgattactgttcctcatgatgattcaaatcctttttgaagtgtgcctgtttcattttagttactatgatgttttcagGTAGAGGCAACAATTGAGTATATATGTCGGAATGAAGCTGGTGGAGCAATTCTTGTATTTCTCACTGGCTGGGATGAAATTTCTAAGCTGCTTGACAAAC
| || || | || | | ||| | | || | || | || | | | || ||| |||| |||| || |||||||||||||| |||| ||||||| | || ||||| ||||| || || | |||||||||||||||||| ||||| || |||||
tgccacatttgtgcaccagaactattatttgaacttaatacactgctaaccatacccaggaaaaatagttgctgctaacacctctatgttgacatttt-agGTGGAAAGTACAATTGAGTATATTTGTCACTATGAAGCAGAAGGTGCAATCCTTGTGTTCCTTATTGGCTGGGATGAAATTTCGAAGCTTCTGGACAAGA
upper sequence: GLYMA10G10180.1 (Glycine max), 3'ss of exon 10
lower sequence: AT2G35920.1 (Arabidopsis thaliana), 3'ss of exon 9
-agtcagttagctcaatattttcctgattactgttcctcatgatgattcaaatccttttt----gaagtgtgcctgtttcattttagttactatgatgttttc--agGTAGAGGCAACAATTGAGTATATATGTCGGAATGAAGCTGGTGGAGCAATTCTTGTATTTCTCACTGGCTGGGATGAAATTTCTAAGCTGCTTGACAAAC
| | || | | |||| || || | | || || || ||| | ||| |||| | | | | | | | | || |||| |||||||||||||| |||| ||||| ||||| |||||| || |||||||| || || |||||||||||||| ||||| || |||||||| |||
gtatgaattt-cactttattctcttggtaatc-cagctaattccagcccatatcatcttttactgaagaat-ctcatcatgaactgatctttgaaactctgtcgtagGTGGAGGCAACAATTGAACATATTTGTCGTCTTGAAGGTGGTGGGGCGATTCTTGTCTTCCTTACTGGCTGGGATGAGATTTCAAAACTGCTTGAAAAAA
upper sequence: GLYMA10G10180.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv08s0032g01230.t01 (Vitis vinifera), 3'ss of exon 9
agtcagttagctcaatattttcctgattac-tgtt-cctcatga-tgattcaaatcctttttg-aagtgtgcctgtttc-attttagttactatgatgttttcagGTAGAGGCAACAATTGAGTATATATGTCGGAATGAAGCTGGTGGAGCAATTCTTGTATTTCTCACTGGCTGGGATGAAATTTCTAAGCTGCTTGACAAAC
| | | | | | ||| | | | || | |||| | || || | |||| || || | ||| || | ||| | || | || |||| || ||||||||||| |||| ||||| |||||| | ||||||||||||||||| ||||||||||||||||| |||||||| || |||||||||
----tctcaaatgatgacatccctaagtgcacgtcgcttcataaatgctttttcttctttatgtaattacagtaatttagatcccacttaat-tgttattcatagGTTGAAGCAACAATTGAACATATTTGTCGCCATGAAGGGGAAGGAGCAATTCTTGTATTCCTCACTGGCTGGGATGACATTTCTAATCTACTTGACAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcaaatcctttttgaagtgtgcctgtttcattttagttactatgatgttttcagGTAGAGGCAACAATTGAGTATATATGTCGGAATGAAGCTGGTGGAGCAATTCTTGTATTTCTCACTGGCTGGGATGAAATTTCTAAGCTGCTTGACAAAC
tgttttc CT-rich tract
tttcattttagtta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agtcagttagctcaatattttcctgattactgttcctcatgatgattcaaatcctttttgaagtgtgcctgtttcattttagttactatgatgttttcagGTAGAGGCAACAATTGAGTATATATGTCGGAATGAAGCTGGTGGAGCAATTCTTGTATTTCTCACTGGCTGGGATGAAATTTCTAAGCTGCTTGACAAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - -cctgatt
- - - - - - - - - - - - - - -ctgttcc
- - - - - - - - - - - - - - - - - - -catgatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgcctg