Sequence
atgc intronic sequence ATGC exonic sequencegtagtatctgttctctaatccttcattactttttgtgctcacatttctgattattctgtggtacttttcttggtatgcagGAATCGGCTTCGTTTGCTCACACAGTTTTTGGAACATCTTGTAAGTGAGGGAAGCCAGGATGTACATGTTCACAATGCACTGGGTAAAATCATCATTGAT
Basic information
species | Glycine max |
transcript | GLYMA11G35460.1 |
intron # | 21 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 21
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 22
-----------------------------------------gtagtatctgttctctaatccttcattactttttgtgctcacatttctgattattctgtggtacttttcttggtatgcagGAATCGGCTTCGTTTGCTCACACAGTTTTTGGAACATCTTGTAAGTGAGGGAAGCCAGGATGTACATGTTCACAATGCACTGGGTAAAATCATCATTGAT
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gtatgattctttatattatcttgtattccacaaccagattaagggcatgtgcacacgcacacaaacatatgcttttttgttttgttgctgacc-tcatcttttatatttctt--ttttcagGAACCGCCTACGGCTGCTGACACAATTTTTGGAGCACTTAGTGAGCGAGGGTAGCCAAGATGTCCATGTGCACAATGCTCTTGGAAAAATCATCATTGAC
upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 21
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 22
-----------------------------------------gtagtatctgttctctaatccttcattactttttgtgctcacatttctgattattctgtggtacttttcttggtatgcagGAATCGGCTTCGTTTGCTCACACAGTTTTTGGAACATCTTGTAAGTGAGGGAAGCCAGGATGTACATGTTCACAATGCACTGGGTAAAATCATCATTGAT
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gtatgattctttatattatcttgtattccacagccagcttaagggcatgtgcacatgcacacaaacatatgcttttttgtttcgttgctgatc-tcatcttttatatttctt--ttttcagGAACCGCCTACGGCTGCTGACACAATTTTTGGAGCACTTAGTGAGCGAGGGTAGCCAAGATGTCCATGTGCACAATGCTCTTGGAAAAATCATCATTGAC
upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 21
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 22
----gtagtatctgttctctaatccttcattactttttgtgctcacatttctgattattctgtggtacttttcttggtatgcagGAATCGGCTTCGTTTGCTCACACAGTTTTTGGAACATCTTGTAAGTGAGGGAAGCCAGGATGTACATGTTCACAATGCACTGGGTAAAATCATCATTGAT
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gtgaatccttttggtcatcctggtttgcgttcataattatgtctgtttagttctggaaactctaatatgtttctgctttttcagAAATCGACTCCGTCTCCTCACTCAGTTCTTGGAGCATTTAGTTAGTGAGGGAAGCCAAGATGTGCATGTCCATAATGCCTTGGGTAAAATTATCATAGAC
upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 21
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 22
gtagtatctgttctctaatccttcattactttt-tgtgctcacatttctgattatt---ctgtggtacttttcttggtatgcagGAATCGGCTTCGTTTGCTCACACAGTTTTTGGAACATCTTGTAAGTGAGGGAAGCCAGGATGTACATGTTCACAATGCACTGGGTAAAATCATCATTGAT
|| | | || | ||| | ||| | || | || | || || | || || | || | | | | ||| ||||| || ||| | ||||| ||||| ||||| ||||| || |||||||||||||| ||||| ||||| || ||||| |||||||||| ||||| ||
gtgcgaacccttttagcatcttgaatttcgttcatatgtatgctattttgttctttaggctctaatatgtatatgtcttctcagAAATCGACTCCGTCTCCTCACTCAGTTCTTGGAGCATCTAGTTAGTGAGGGAAGCCAAGATGTGCATGTCCATAATGCCTTGGGTAAAATTATCATAGAC
upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 21
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 22
gtagtatctgttctcta-atccttcattactttttgtgctcacatttctgattattctgtggtacttttcttg--gtatgcagGAATCGGCTTCGTTTGCTCACACAGTTTTTGGAACATCTTGTAAGTGAGGGAAGCCAGGATGTACATGTTCACAATGCACTGGGTAAAATCATCATTGAT
|| | | | | | || | || || || || || | | | | | |||| | || || | ||| ||||| || ||||| ||||| ||||| ||||| |||||||| |||||||||||||| ||||| ||||| || ||||| |||||||||||||| || ||
gtgatgtgtccctaccatatgccctgttcgggttcactttctttttact--tcaattgcttatgctttgcatgtggttttcagAAATCGACTCCGTTTACTCACTCAGTTCTTGGAGCATCTTGTGAGTGAGGGAAGCCAAGATGTGCATGTCCATAATGCTCTGGGTAAAATCATTATAGAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttactttttgtgctcacatttctgattattctgtggtacttttcttggtatgcagGAATCGGCTTCGTTTGCTCACACAGTTTTTGGAACATCTTGTAAGTGAGGGAAGCCAGGATGTACATGTTCACAATGCACTGGGTAAAATCATCATTGAT
tacttttctt CT-rich tract
tgattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagtatctgttctctaatccttcattactttttgtgctcacatttctgattattctgtggtacttttcttggtatgcagGAATCGGCTTCGTTTGCTCACACAGTTTTTGGAACATCTTGTAAGTGAGGGAAGCCAGGATGTACATGTTCACAATGCACTGGGTAAAATCATCATTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG