Sequence
atgc intronic sequence ATGC exonic sequence...atgcccatgtcaatagatcaataggatagaactgctattctgcgattttgctataaaaactgaaaagactcctagtcctaatgagccttgtacttggcagTGTTGCAAGATATCAAGAAGCAAATCCTGCAGTTTATACCACTATTATATTCCCATTTCTTTTCGCGGTTATGTTTGGTGACTGGGGTCATGGAATTTGC
Basic information
species | Glycine max |
transcript | GLYMA12G07740.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G07740.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv06s0004g03450.t01 (Vitis vinifera), 3'ss of exon 10
atgcccatgtcaata-gatcaataggatagaactgctattctgcgattttgctataaaaactgaaaagactcctagtcctaatg-agccttgtacttggcagTGTTGCAAGATATCAAGAAGCAAATCCTGCAGTTTATACCACTATTATATTCCCATTTCTTTTCGCGGTTATGTTTGGTGACTGGGGTCATGGAATTTGC
|| | | | | | | | | | || || || | |||| | ||| || || | |||||| | | || ||| ||||||||| ||||||||||||||||||||||||||||| || ||||| || || ||||| || || || |||||||| || |||||||||||||| |||
-tgaaagctttaggataagctgtttttttggtgaacaatgttgactttattttatacatgtcaaaacga-tcaagatactaatgcaataatttatttgacagTGTTGCTAGATATCAAGAAGCAAATCCTGCAGTTTACACTGTTATTACGTTTCCGTTTCTCTTTGCCGTGATGTTTGGGGATTGGGGTCATGGAATATGC
upper sequence: GLYMA12G07740.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S296_62V6.1 (Physcomitrella patens), 3'ss of exon 9
---------atgccca-tgtcaatagatcaataggata--gaactgctattct-gcgatttt--gctataaaa--actgaaa--agactcctagtcct----------aatgagc-cttgtacttg-gcagTGTTGCAAGATATCAAGAAGCAAATCCTGCAGTTTATACCACTATTATATTCCCATTTCTTTTCGCGGTTATGTTTGGTGACTGGGGTCATGGAATTTGC
|| || | | | || || | || | ||| ||| | || ||||| || | || | || | | | | | || | ||| | || || || ||| || | | ||||| || |||||||||| || ||||| || | ||| ||||| || ||||| |||||||||||||||||||| |||||||| |||
gtaggtgtggtgatcagtataattatgtcgaggagaagctggtctgtgatttttgctatttttaactgtcaagcgattgtggtcatatttttgcttctttcacacggtactgatcatttaaacatgtacagAGTGGGGCGGTATCAGGAGGCAAATCCTGGTTGTTTTACCATAATAACATTTCCATTCCTGTTCGCTGTTATGTTTGGTGACTGGGGCCATGGAATCTGC
upper sequence: GLYMA12G07740.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S107_75V6.1 (Physcomitrella patens), 3'ss of exon 9
------------------------atgcc-catgtcaatagatcaataggatagaactgctatt-----ctgcgattttgctataaaaactgaaaagactcct-------agtcctaatgagcc-ttgtacttg-gcagTGTTGCAAGATATCAAGAAGCAAATCCTGCAGTTTATACCACTATTATATTCCCATTTCTTTTCGCGGTTATGTTTGGTGACTGGGGTCATGGAATTTGC
| | | | | || | | | | ||| | | || | ||| ||| || | || ||| || || || |||| | ||||||| | | | ||||| ||||||||||||| | || ||||| || | ||||| || || ||||| |||||||||||||||||||| |||||||| ||
gtaagtgtgcagatcaacgatattacgacgcgttgaaactgggttgttgatgatcgctgttttcaactgctaagggattgtggtaatggttgttttcctttctttcattcagttctgatcagatgttgtgaatatgcagTGTGGGACGGTATCAGGAAGCAAATCCTGGATGTTTTACCATAATAACTTTCCCTTTCCTATTCGCTGTTATGTTTGGTGACTGGGGACATGGAATCTGT
upper sequence: GLYMA12G07740.1 (Glycine max), 3'ss of exon 10
lower sequence: EFJ10256 (Selaginella moellendorffii), 3'ss of exon 9
atgcccatgtcaatagatcaataggatagaactgctattctgcgattttgctataaaaactgaaaagactcctagtcctaatgagccttgtacttggcagTGTTGCAAGATATCAAGAAGCAAATCCTGCAGTTTATACCACTATTATATTCCCATTTCTTTTCGCGGTTATGTTTGGTGACTGGGGTCATGGAATTTGC
| | ||| | || | | | || || ||| | ||| | | |||||||| |||||||||||||||||| || | ||||| |||| | | ||| |||||||| |||||||| |||||||| ||||||||||| |||||| |
-----------------------------------------gtaagcttg---tgaaccattattgg----ctgagtcttatg-gtcttttggtctccagTGTTGGAAGATATCAAGAAGCAAACCCGGGAGTTTTCACCATCGTGACATTTCCATTTCTATTCGCGGTCATGTTTGGAGACTGGGGTCACGGAATTGTC
upper sequence: GLYMA12G07740.1 (Glycine max), 3'ss of exon 10
lower sequence: EFJ12515 (Selaginella moellendorffii), 3'ss of exon 9
atgcccatgtcaatagatcaataggatagaactgctattctgcgattttgctataaaaactgaaaagactcctagtcctaatgagccttgtacttggcagTGTTGCAAGATATCAAGAAGCAAATCCTGCAGTTTATACCACTATTATATTCCCATTTCTTTTCGCGGTTATGTTTGGTGACTGGGGTCATGGAATTTGC
| | || || | || |||| || | || || | ||| | |||||||| |||||||||||||||||| || | ||||| |||| | | ||| |||||||| |||||||| |||||||| ||||||||||| |||||| |
---------------------------------gtaagattgtgaac---cattattggctgacaaaagtcttat--------ggtcttttggcctccagTGTTGGAAGATATCAAGAAGCAAACCCGGGAGTTTTCACCATCGTGACATTTCCATTTCTATTCGCGGTCATGTTTGGGGACTGGGGTCACGGAATTGTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgctataaaaactgaaaagactcctagtcctaatgagccttgtacttggcagTGTTGCAAGATATCAAGAAGCAAATCCTGCAGTTTATACCACTATTATATTCCCATTTCTTTTCGCGGTTATGTTTGGTGACTGGGGTCATGGAATTTGC
tcctaat putative branch site (score: 2)
tataaaaactgaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgcccatgtcaatagatcaataggatagaactgctattctgcgattttgctataaaaactgaaaagactcctagtcctaatgagccttgtacttggcagTGTTGCAAGATATCAAGAAGCAAATCCTGCAGTTTATACCACTATTATATTCCCATTTCTTTTCGCGGTTATGTTTGGTGACTGGGGTCATGGAATTTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - -catgtca
- - - - - - - - - - - - - - - actgcta
- - - - - - - - - - - - - - - - - - -ttctgcg
- - - - - - - - - - - - - - - - - - - - - - - - - - ataaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaagac