Sequence
atgc intronic sequence ATGC exonic sequencegtaagtgaccttgttgcactgttgcatagtaacatttatgaattaccacattcttccaattgaatgactttcacttttcgaattgttatggaaacagTGGATATCTAGCTGATAGGAGGAAGCCAATCATCTTCTCAATGGCAAGGCTTGATGTTGTGAAGAACTTGAGCGGGTTAGTTGAATGGTATGGCAAGAAC
Basic information
species | Glycine max |
transcript | GLYMA02G40740.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G40740.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os02g58480.1 (Oryza sativa), 3'ss of exon 8
gtaagtg-accttgttgcactgttgcatagta------acatttatgaattaccacattcttccaattgaatgactttcacttttcgaattgttatggaaacagTGGATATCTAGCTGATAGGAGGAAGCCAATCATCTTCTCAATGGCAAGGCTTGATGTTGTGAAGAACTTGAGCGGGTTAGTTGAATGGTATGGCAAGAAC
|||||| | | | | | | |||| | ||| | |||| |||| | | | || ||| || | | | || || ||| || | ||||| || ||||| |||||||||||||| ||||||||||| ||||| | |||||| | | ||| | || ||||||||||| |||||
gtaagtacatcccttgggaagcatatccagtatgcaggatcttttttttttacagcattgctttatt--aacaactcgcatcacatgtggtatgattaaatcagAGGGCACCTAGCAGACAGGAGTAAGCCAATCATCTTTTCAATGGCAAGACTTGACAAGATAAAGAACATCACAGGGCTGGTCGAATGGTATGGTCAGAAC
upper sequence: GLYMA02G40740.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os04g17650.1 (Oryza sativa), 3'ss of exon 11
-----------------------------------------------gtaagtgaccttgt--tgcactgttgcatagtaacattta---tgaattaccacattc--ttccaattgaatgactttcacttttcgaattgttatggaaacagTGGATATCTAGCTGATAGGAGGAAGCCAATCATCTTCTCAATGGCAAGGCTTGATGTTGTGAAGAACTTGAGCGGGTTAGTTGAATGGTATGGCAAGAAC
|| | | ||| | | |||||| || | || | | | || ||| | | ||||| || ||||| ||| || | || ||| || ||||| || || |||| || |||||||||||||| ||||||||||||||| || || ||| | | ||| | || || ||||||||| |||||
gtaagctactacccggacggccaggctccttggaaacgtacctagctacaaattaacttctcttttactgttagatcagatcagacaacttaagttggttaattaagtgctaattgc-tgctcttcacctttt---tttaatttaaaccagAGGGTATCTGGCAGACAGGAACAAACCAATCATCTTCTCGATGGCAAGGCTTGATAAGGTAAAAAACATAACTGGGCTTGTGGAGTGGTATGGCCAGAAC
upper sequence: GLYMA02G40740.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os04g24430.1 (Oryza sativa), 3'ss of exon 11
-----------------------------------------------gtaagtgaccttgt--tgcactgttgcatagtaacattta---tgaattaccacattc--ttccaattgaatgactttcacttttcgaattgttatggaaacagTGGATATCTAGCTGATAGGAGGAAGCCAATCATCTTCTCAATGGCAAGGCTTGATGTTGTGAAGAACTTGAGCGGGTTAGTTGAATGGTATGGCAAGAAC
|| | | ||| | | |||||| || | || | | | || | ||| | | ||||| || ||||| ||| || | || ||| || ||||| || || |||| || |||||||||||||| ||||||||||||||| || || ||| | | ||| | || || ||||||||| |||||
gtaagctactacccggacggccaggctccttggaaacgtacctagctacaaattaacttctcttttactgttagatcagatcagacaacttaagttggctaattaagtgctaattgc-tgctcttcacctttt---tttaatttaaaccagAGGGTATCTGGCAGACAGGAACAAACCAATCATCTTCTCGATGGCAAGGCTTGATAAGGTAAAAAACATAACTGGGCTTGTGGAGTGGTATGGCCAGAAC
upper sequence: GLYMA02G40740.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G37180.1 (Arabidopsis thaliana), 3'ss of exon 9
-----------------------------------------------------------------------------gtaagtgaccttgttgcactgttgcatagtaacatttatgaattaccacattcttccaattgaatgactttcacttttcgaattgttatgga-aacagTGGATATCTAGCTGATAGGAGGAAGCCAATCATCTTCTCAATGGCAAGGCTTGATGTTGTGAAGAACTTGAGCGGGTTAGTTGAATGGTATGGCAAGAAC
| || | || | | | | || ||||| |||| | | | | | ||| || | | || | || || || | || || || ||| ||| || | || ||| || ||||| |||||||||||||||||||||||||| || ||| | | ||| ||| ||| ||||||| |||||||
gtacgtctctattccctattttacttttccacaatactacacggtctcaagaagcgttatagattgttatagaatatgaaactaactat-taatattatttgtaagtaaatgttatagaatgttat-ctatgtgtattaaaaaatactaaccgatatttttcttgtgaacaaaagCGGTTATTTAGTGGACAAGAAGAAACCGATCATTTTCTCAATGGCAAGGCTTGATGTTGTCAAAAACCTAACCGGATTAACTGAGTGGTATGCCAAGAAC
upper sequence: GLYMA02G40740.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv04s0079g00230.t01 (Vitis vinifera), 3'ss of exon 10
--------------gtaagtgaccttgttgcactgttgcatagtaacatttatgaattaccacattcttccaattgaatgactttcactt--ttcgaattgttatggaaacagTGGATATCTAGCTGATAGGAGGAAGCCAATCATCTTCTCAATGGCAAGGCTTGATGTTGTGAAGAACTTGAGCGGGTTAGTTGAATGGTATGGCAAGAAC
| || | | ||||| | | || | |||| || | | | | || ||||| ||| || | | ||| | | ||||||||||| |||||| || || | ||| || ||||||||||||||||||||||| || | ||||||||| | | |||||| ||| |||| || || |||
gtaggttttgaaagggaaatcat-ttgttcaattatttatttataactaccttgcagt-ttggaattttatgtctgaattactaacatctggtctgaaccttga--aaaacagTGGATTTCTAGCAGACAGAAAGAAACCTATCATCTTCTCAATGGCAAGGCTGGACATAGTGAAGAACATTACGGGGTTAACTGAGTGGTTCGGGAACAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaccacattcttccaattgaatgactttcacttttcgaattgttatggaaacagTGGATATCTAGCTGATAGGAGGAAGCCAATCATCTTCTCAATGGCAAGGCTTGATGTTGTGAAGAACTTGAGCGGGTTAGTTGAATGGTATGGCAAGAAC
aattgttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtgaccttgttgcactgttgcatagtaacatttatgaattaccacattcttccaattgaatgactttcacttttcgaattgttatggaaacagTGGATATCTAGCTGATAGGAGGAAGCCAATCATCTTCTCAATGGCAAGGCTTGATGTTGTGAAGAACTTGAGCGGGTTAGTTGAATGGTATGGCAAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC