Sequence
atgc intronic sequence ATGC exonic sequence...ttaaacatatctttagtttagggaaaaaaacacaaatgcaacataatttattagcttagttttagctttataagatatctttttttcatcacgtgtgcagGAAACAACCATTGAGGGTATACAGCATGGTGAAATATGCAGCAATAGCTCGTGGGGATGCTGAGGTTTTCATGAAGTTTGCAAGGGCTGGTTACAAGGAG
Basic information
species | Glycine max |
transcript | GLYMA15G07450.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G07450.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g56170.1 (Oryza sativa), 3'ss of exon 2
-----ttaaacatatctttagtttagggaaaaaaacacaaatgcaacataatttattagcttagttttagctttataagatatctttttttcatcacgtgtgcagGAAACAACCATTGAGGGTATACAGCATGGTGAAATATGCAGCAATAGCTCGTGGGGATGCTGAGGTTTTCATGAAGTTTGCAAGGGCTGGTTACAAGGAG
|| ||| | | |||| | || | || || || | || | || ||||| | | | | ||| | | |||||| ||||| || | || |||||||||||||||||||| |||||||| || ||||||| || | |||||||| || || || ||||| |||||||||
cttcatttgaca-gttgtccgtttccatctattgtagcatgtaatttgcaagtt-ttggatttatcgtactgttata---tttatatgttttgcttggattccagGAAGCAACCCCTGCGTGTGTACAGCATGGTGAAATATGCCGCAATAGCACGAGGGGATGTAGAAATATTCATGAAATTCGCTAGAGCTGGATACAAGGAG
upper sequence: GLYMA15G07450.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G108364_T01 (Zea mays), 3'ss of exon 2
ttaaacatatctttagtttagggaaaaaaacacaaatgcaacataatttattagcttagttttagctttataagatatct---ttttttcatcacgtgtgcagGAAACAACCATTGAGGGTATACAGCATGGTGAAATATGCAGCAATAGCTCGTGGGGATGCTGAGGTTTTCATGAAGTTTGCAAGGGCTGGTTACAAGGAG
| | | | || | || || | | | | | | ||| | ||||| | || ||| | | ||| || | |||||| ||||| || | || |||||||||||||||||||| |||||||| || || |||||||| | |||||||| |||||||| ||||| ||||| |||
ctctgcgcgtgtacagcatccaaaatgtgactcttgtatagt-tgctcaactaggt--gttttgattgtactgtttatttacatcattttgctttgtatccagGAATCAACCTCTGCGCGTGTACAGCATGGTGAAATATGCTGCAATAGCACGAGGCGATGCTGAAATCTTCATGAAATTTGCAAGAGCTGGATACAAAGAG
upper sequence: GLYMA15G07450.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G54390.1 (Arabidopsis thaliana), 3'ss of exon 2
ttaaacatatctttagtttagggaaaaaaacacaaatgcaacataatttattagcttagttttagctttataagat--atctttttttcatcacgtgtgcagGAAACAACCATTGAGGGTATACAGCATGGTGAAATATGCAGCAATAGCTCGTGGGGATGCTGAGGTTTTCATGAAGTTTGCAAGGGCTGGTTACAAGGAG
||||| | ||| | | |||| || | ||| || | | || | | | ||||| || || || || | || || |||||||||||||||||||| || || ||||| || ||||| || || |||||||||||| | | ||||||| |||
-------------------------------gtaaatgttgt-ttattcactctctta-ttcaaatgttacgttattgaccaaaagttttttgc-tctgcagAAAGCAGCCTATGCGAGTGTATAGCATGGTGAAATATGCAGCGATTGCACGTGGAGACGCTGAAGTGTTTATGAAGTTTGCACAGTCAAGTTACAAAGAG
upper sequence: GLYMA15G07450.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv00s0301g00050.t01 (Vitis vinifera), 3'ss of exon 2
-ttaaacatatctttagtttagggaaaaaaacacaaatgcaacataatttattagcttagttttagctttataagatatctttttttcatcacgtgtgcagGAAACAACCATTGAGGGTATACAGCATGGTGAAATATGCAGCAATAGCTCGTGGGGATGCTGAGGTTTTCATGAAGTTTGCAAGGGCTGGTTACAAGGAG
| | || | | | ||| | || ||| | || | | | | | | | || | | |||| | | | |||||||| ||||| || | ||||||||||||||||| |||||||| ||||| ||||| ||||| ||| |||| |||||||||||||| ||||| ||||||||
aatgataatgaaaatggcagatagaagataattaaaagaagaaatggaaaacagaaacacatgt-gttcattgagtagtttcttttccgtttcaactgcagGAAGCAACCGTTACGTGTATACAGCATGGTGAAGTATGCAGCCATAGCCCGTGGTGATGCAGAGATTTTTATGAAGTTTGCAAGAGCTGGCTACAAGGAA
upper sequence: GLYMA15G07450.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ19025 (Selaginella moellendorffii), 3'ss of exon 2
ttaaacatatctttagtttagggaaaaaaacacaaatgcaacataatttattagcttagttttagctttataagatatctttttttcatcacgtgtgcagGAAACAACCATTGAGGGTATACAGCATGGTGAAATATGCAGCAATAGCTCGTGGGGATGCTGAGGTTTTCATGAAGTTTGCAAGGGCTGGTTACAAGGAG
| || | | ||| | || ||| | || || ||||| || | ||||||||| || || |||| ||||| |||| ||| ||||||||||| |||||||| || || ||| | |||||||| || ||||| || ||||||||||||
---------------------------------gtacgcgaaagtctttctctgc-------gagcggcaaaaactaactttt----gtctccctggcagGAAACGTCCGTTACGGGTCTACAGTATGGCGAAGTATGCAGCAATTGCTCGTGGCGACGCGGAGATCTTCATGAAATTCGCAAGAGCGGGTTACAAGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttattagcttagttttagctttataagatatctttttttcatcacgtgtgcagGAAACAACCATTGAGGGTATACAGCATGGTGAAATATGCAGCAATAGCTCGTGGGGATGCTGAGGTTTTCATGAAGTTTGCAAGGGCTGGTTACAAGGAG
tctttttttcatcac CT-rich tract
ttttagctttataaga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttaaacatatctttagtttagggaaaaaaacacaaatgcaacataatttattagcttagttttagctttataagatatctttttttcatcacgtgtgcagGAAACAACCATTGAGGGTATACAGCATGGTGAAATATGCAGCAATAGCTCGTGGGGATGCTGAGGTTTTCATGAAGTTTGCAAGGGCTGGTTACAAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - -aaaaaaa
- - - - - - - - - - - - - - - - - aatgcaa