Sequence
atgc intronic sequence ATGC exonic sequence...taataatgtagaaagcatcataaatttatcttatttacgcaggctgttactttttattacttcaaccagtatttgatacaatcctctaatttgcaatcagATATATGAAATTGGTGGTGGATCTGGAACATGTGCCAAGGGTATAATGGATTACATAATGTTGAATGCTCCTGCAAAAGTTTATAACAGTATGACTTACA
Basic information
species | Glycine max |
transcript | GLYMA15G14130.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G14130.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G101217_T03 (Zea mays), 3'ss of exon 4
---------------------------------------taataatgtagaaagcatcataaatttatcttatttacgcaggctgt-tactttttatta--cttcaaccagtatttgatacaatcctctaatttgca---atcagATATATGAAATTGGTGGTGGATCTGGAACATGTGCCAAGGGTATAATGGATTACATAATGTTGAATGCTCCTGCAAAAGTTTATAACAGTATGACTTACA
|| | | | |||| || | | || || | | || ||||| ||| | || || | | | | |||||||||| || ||||||||||| ||||||||||| || ||| | ||| | |||||||| ||| ||||||| || ||||||| || || ||||| ||||
gtgtggtctcaagatttcttgtcacatcatgctactcttcaaccccacatatgaagttccggatttgctttcctcagatttcatgaatatctaagagtatgcttcatccatttttgcttatgaattggattctcgtactgatcagATATACGAGATTGGTGGTGGCTCTGGAACATGCGCAAAGTGCATACTTGATTACATGATGCTGAATGCGCCACCAAAAGTCTACAATGATATGAAATACA
upper sequence: GLYMA15G14130.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G04900.1 (Arabidopsis thaliana), 3'ss of exon 4
--taataatgtagaaagcatcataaatttatcttatttacgcaggctgttactttttattacttcaaccagtatttgatacaatcctctaatttgcaatcagATATATGAAATTGGTGGTGGATCTGGAACATGTGCCAAGGGTATAATGGATTACATAATGTTGAATGCTCCTGCAAAAGTTTATAACAGTATGACTTACA
|| | || | | | || | | | | | ||| | | ||| || || | ||| | | | || || | ||||||| ||||||||||||||||| || ||||||||||||||| || |||| || ||||||||||||||||| | | | | || || | |||| ||||
aatatctggaaaagggaaattttcatcctggtttgtgagttaaagtcgaca-tttgcactggttcttccgttaatcaataaca-cttgaaacatgtgcttagATATACGAAATTGGTGGTGGATCGGGCACATGTGCCAAGGGTGTATTGGACTATATAATGTTGAATGCTCCGGAGAGAATCTACAAGAACATGAGCTACA
upper sequence: GLYMA15G14130.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv05s0136g00390.t01 (Vitis vinifera), 3'ss of exon 5
------taataatgtagaaagcatcataaatttatcttatttacgcaggctgttactttttattacttcaaccagtatttgatacaatcctctaatttg--caatcagATATATGAAATTGGTGGTGGATCTGGAACATGTGCCAAGGGTATAATGGATTACATAATGTTGAATGCTCCTGCAAAAGTTTATAACAGTATGACTTACA
||||| ||||| | || | | | || | | ||||||| | | || ||||||| | | || |||| || |||||||||||||||||||||||||| ||||| ||||| ||||| |||||||||||| ||||| ||||||| ||||| | |||||| || ||||||| |||||
agtgcaccttaatgctgaaaggtcctcgaa-----caaaataacacgaaacat---cttttattcatcaaggcaaaatttgatcctgctgtttattttgtgcatacagATATATGAAATTGGTGGTGGATCAGGAACTTGTGCAAAGGGCATAATGGATTACCTAATGCTGAATGCACCTGCTAGAGTTTACAATAGTATGAGTTACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttactttttattacttcaaccagtatttgatacaatcctctaatttgcaatcagATATATGAAATTGGTGGTGGATCTGGAACATGTGCCAAGGGTATAATGGATTACATAATGTTGAATGCTCCTGCAAAAGTTTATAACAGTATGACTTACA
ctctaat putative branch site (score: 3)
tttttattacttcaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taataatgtagaaagcatcataaatttatcttatttacgcaggctgttactttttattacttcaaccagtatttgatacaatcctctaatttgcaatcagATATATGAAATTGGTGGTGGATCTGGAACATGTGCCAAGGGTATAATGGATTACATAATGTTGAATGCTCCTGCAAAAGTTTATAACAGTATGACTTACA
- - aatgtag
- - - - - - - - - - - - - - - - - - - gcaggct