Sequence
atgc intronic sequence ATGC exonic sequence...tagagtacctgtgtgtgtgtgtccttgaattttgctctacccatttagtttcaagtgactttgattgctaattgttaatagcttctgtcttttggtctagGTGAACAATATCAGTGGTTACCTTCCTGGACGAATTGTCTTTTTCTTG
Basic information
species | Glycine max |
transcript | GLYMA11G27870.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G27870.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os05g07130.1 (Oryza sativa), 3'ss of exon 14
-tagagtacctgtgtgtg---tgtgtccttgaattttgctctacccatttagtttcaagtgactttgattgctaa-ttgttaatagcttctgtcttttggtctagGTGAACAATATCAGTGGTTACCTTCCTGGACGAATTGTCTTTTTCTTG
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atatgtttttagcttctgaaacaagtcatgcattttagctttat---tttgatt--aattattcattattgtcaagctattaatttgtcctgaccttttatccagGTCAACAATATCAGTGGTTATCTCCCTGGAAGGATTGTCTTTTTCTTG
upper sequence: GLYMA11G27870.1 (Glycine max), 3'ss of exon 15
lower sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 14
---------------------------tagagtacctgtgtgtgtgtgtccttgaattttgctctaccca---tttagtttcaagtgactttgattgctaattgttaatagcttctgtcttttggtctagGTGAACAATATCAGTGGTTACCTTCCTGGACGAATTGTCTTTTTCTTG
|| | | | | || | || || | | || || | | || | || || || | || | || |||| |||||| | ||||||||||||| ||||||||||||||||| ||||||| |||||||||
gtacgtctctgtctgtttctgtaaaattaaattggcgtttcacatg-gctatttcatctagtcttaatcacgatatggtacttgatcggttcgactgttcatgactgtta--ttcta-cttttgttgcagGTGAACAATATTAGTGGTTACCTTCCTGGGAGAATTGTATTTTTCTTG
upper sequence: GLYMA11G27870.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 14
tagagtacctgtgtgtgtgtgtccttgaattttgctctacccatttagtttcaagtgactttgattgctaattg--ttaatagcttctgtcttttggtctagGTGAACAATATCAGTGGTTACCTTCCTGGACGAATTGTCTTTTTCTTG
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-taatcattggattcagcggattcagatgtaataatctgattgatctatagtgtgttcctttaattttgtatttactcagtagcgt-tatctattgtttcagGTCAACAATATCAGTGGCTATCTTCCTGGGCGGATTGTGTTTTTCTTG
upper sequence: GLYMA11G27870.1 (Glycine max), 3'ss of exon 15
lower sequence: PP1S215_89V6.1 (Physcomitrella patens), 3'ss of exon 15
-------------------------------tagagtacctgtgtgtgt--gtgtccttgaattttgctctacccatttagtttcaagtgactttgattgctaattgttaat--agcttctgtctt-----ttggtc-------tagGTGAACAATATCAGTGGTTACCTTCCTGGACGAATTGTCTTTTTCTTG
| |||| | || | | | || | || | ||||| | ||| | | | | | || || || || || ||| |||| |||||||||| || ||||||||||||||||| |||||||| ||||| ||
gtgagtaaattcagtttgccaagcaagtaattcaagtatttagaggtaccaatagcaatcgatactactt--ctcatttgaggtgaagaaagtataggaggtgatgagaaaatgagtttttgacttaattgttggctgcgcttgtagGTGAACAGCATTAGTGGTTACCTTCCTGGTCGAATTGTGTTTTTTCTGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|22521914|gb|BU080725.1|BU080725EST: CTTACATAAAAATGATTGATATGGTCAGTGGGCATGGTGGACAAATACAA GTGAATAATATCAGTGGTTACCTTCCTGGCCGAATTGTCTTTTTCTTG
genomic: CTTACATAAAAATGATTGATATGGTCAGTGGGCATGGTGGACAAATACAAgtaagctcaa ... tttggtctagGTGAACAATATCAGTGGTTACCTTCCTGGACGAATTGTCTTTTTCTTG
EST:
gi|20448750|gb|BQ252874.1|BQ252874EST: CTTACATAAAAATGATTGATATGGTCAGTGGGCATGGTGGACAAATACAA GTGAACAATATCAGTGGTTACCTTCCTGGACGAATTGTCTTTTTCTTG
genomic: CTTACATAAAAATGATTGATATGGTCAGTGGGCATGGTGGACAAATACAAgtaagctcaa ... tttggtctagGTGAACAATATCAGTGGTTACCTTCCTGGACGAATTGTCTTTTTCTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagtttcaagtgactttgattgctaattgttaatagcttctgtcttttggtctagGTGAACAATATCAGTGGTTACCTTCCTGGACGAATTGTCTTTTTCTTG
cttctgtctttt CT-rich tract
taattgttaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagagtacctgtgtgtgtgtgtccttgaattttgctctacccatttagtttcaagtgactttgattgctaattgttaatagcttctgtcttttggtctagGTGAACAATATCAGTGGTTACCTTCCTGGACGAATTGTCTTTTTCTTG
- - - -cctgtgt
- - - - - gtgtgtg
- - - - - - - - - - - ccttgaa
- - - - - - - - - - - - - - - - - - ctaccca
- - - - - - - - - - - - - - - - - - - - - - - - - - - gtgactt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgattgc