Sequence
atgc intronic sequence ATGC exonic sequence...tgtagagtacctgtgtgtgtgtccttgaattttgctctacccatttagtttcaagtgactttgattgctaactgttaatagcttctgtcttttggtctagGTGAACAATATCAGTGGCTACCTTCCTGGACGAATTGTCTTTTTCTTG
Basic information
species | Glycine max |
transcript | GLYMA11G27410.1 |
intron # | 20 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G27410.1 (Glycine max), 3'ss of exon 20
lower sequence: LOC_Os05g07130.1 (Oryza sativa), 3'ss of exon 14
-----tgtagagtacctgtgtgtgtgtccttgaattttgctctacccatttagtttcaagtgactttgattgctaa-ctgttaatagcttctgtcttttggtctagGTGAACAATATCAGTGGCTACCTTCCTGGACGAATTGTCTTTTTCTTG
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atatgtttttagcttctgaa-acaagtcatgcattttagctttat---tttgatt--aattattcattattgtcaagctattaatttgtcctgaccttttatccagGTCAACAATATCAGTGGTTATCTCCCTGGAAGGATTGTCTTTTTCTTG
upper sequence: GLYMA11G27410.1 (Glycine max), 3'ss of exon 20
lower sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 14
-------------------tgtagagt-acctgtgtgtgtgtccttgaattttgctctacccatttagtttcaa-gtgac-tttgattgct--aactgttaatagcttctgt----cttttggtctagGTGAACAATATCAGTGGCTACCTTCCTGGACGAATTGTCTTTTTCTTG
|||| | | | | | || | | | | ||| |||| | ||| | | | || ||||| | | |||||| || || | | |||||| | ||||||||||||| ||||| ||||||||||| ||||||| |||||||||
gtacgtctctgtctgtttctgtaaaattaaattggcgtttcacatggctatttcatctagtc--ttaatcacgatatggtacttgatcggttcgactgttcatgactgttattctacttttgttgcagGTGAACAATATTAGTGGTTACCTTCCTGGGAGAATTGTATTTTTCTTG
upper sequence: GLYMA11G27410.1 (Glycine max), 3'ss of exon 20
lower sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 14
tgtagagtacctgtgtgtgtgtccttgaattt--tgctctacccatttagtttcaagtgactttgattgctaactg--ttaatagcttctgtcttttggtctagGTGAACAATATCAGTGGCTACCTTCCTGGACGAATTGTCTTTTTCTTG
| | | | | | | || | | ||| | | || |||| ||| | | | | |||| | | ||| ||| | |||| ||||||||||||||||| |||||||| || ||||| |||||||||
---taatcattggattcagcggattcagatgtaataatctgattgatctatagtgtgttcctttaattttgtatttactcagtagcgt-tatctattgtttcagGTCAACAATATCAGTGGCTATCTTCCTGGGCGGATTGTGTTTTTCTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagtttcaagtgactttgattgctaactgttaatagcttctgtcttttggtctagGTGAACAATATCAGTGGCTACCTTCCTGGACGAATTGTCTTTTTCTTG
cttctgtctttt CT-rich tract
tgttaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtagagtacctgtgtgtgtgtccttgaattttgctctacccatttagtttcaagtgactttgattgctaactgttaatagcttctgtcttttggtctagGTGAACAATATCAGTGGCTACCTTCCTGGACGAATTGTCTTTTTCTTG
- - - gtacctg
- - - - - - gtgtgtg
- - - - - - - - - - - ccttgaa
- - - - - - - - - - - - - - - - - - ctaccca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gactttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctaac