Sequence
atgc intronic sequence ATGC exonic sequence...gctggcacaaattgttgccattcatatcatctatgccctttttgtagttcaaatggttttaatctgaatttaatgtctatgaatttgctttgtcttttagGTATACAAAGTGTCAGATATGGAACTTGTTAGGGTGCTTCCTAGTGCAGAAGACGAGGTCAATGTGGCATGCTTTCATCCTTTTGCTGGGGGAGGACTAG
Basic information
species | Glycine max |
transcript | GLYMA03G32620.2 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G32620.4 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G353548_T01 (Zea mays), 3'ss of exon 12
gctggcacaaattgttgccattcatatcatctatgccctttttgtagttcaaatg-gttttaatctgaatttaatgtctatgaatttgctttgtc-ttttagGTATACAAAGTGTCAGATATGGAACTTGTTAGGGTGCTTCCTAGTGCAGAAGACGAGGTCAATGTGGCATGCTTTCATCCTTTTGCTGGGGGAGGACTAG
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aatgatttgc-ttattatcctccacaactact-catattgctcatactttgtgtacaatgtaagccaaactatcaatctttttttttaatttattactttagGTATATAGAGTTTCAGATATGGAGCTTGTGAGAGTGCTTCCTAGTGCCGAAGATGAAGTCAATGTTGCATGCTTTCATCCTTTACCAGGAGGTGGCCTTG
upper sequence: GLYMA03G32620.4 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G007229_T01 (Zea mays), 3'ss of exon 12
gctggcacaaattg-ttgccattcatatcatctatgccctttttgtagttcaaatggttttaatctgaatttaatgtctatgaatttgctttgt--cttttagGTATACAAAGTGTCAGATATGGAACTTGTTAGGGTGCTTCCTAGTGCAGAAGACGAGGTCAATGTGGCATGCTTTCATCCTTTTGCTGGGGGAGGACTAG
| || || || || | ||| ||| | | ||| | || | ||| | | | ||| || || ||| | |||||||||||| | ||| ||||||||||| ||||| || ||||||||||| || ||||| || || ||||| |||||||||||||||| | || || || || |
-tcaaaataatttacttattatcctcctcaacta--ctaatattgctcatactttgtgtacaatgtaagtcaaattatcattttcttcatttattacttttagGTATATAGAGTTTCAGATATGGAGCTTGTGAGAGTGCTTCCTAGCGCTGAAGATGAAGTTAATGTTGCATGCTTTCATCCTTCACCAGGAGGTGGCCTTG
upper sequence: GLYMA03G32620.4 (Glycine max), 3'ss of exon 11
lower sequence: Vv07s0005g04630.t01 (Vitis vinifera), 3'ss of exon 11
-------------------------------------gctggcacaaattgttgccattcata----tcatctatgccctttttgta-gttcaaatggttttaatctgaa-tttaatgtct-atgaatttgctttgtcttttagGTATACAAAGTGTCAGATATGGAACTTGTTAGGGTGCTTCCTAGTGCAGAAGACGAGGTCAATGTGGCATGCTTTCATCCTTTTGCTGGGGGAGGACTAG
||| || | | ||| | | | || | | || || | |||||||| | | ||||| ||| | |||| | | |||||| | |||| ||| ||| |||||||||||||||||||| |||||||| ||||| ||||| ||||||||||| || |||||||||||||| |||| ||||| || |
gtaacacttcaaaattttaatagcattaggcagtaaatatggtactgaagatctccaattgaagtgctggtcaagtactttattatctgttcaaatcttactgttctgatctttcaggtctcacaggctctttttgtcactcagGTTTACCGAGTCTCAGATATGGAACTTGTTAGAGTGCTTCCCAGTGCTGAAGATGAGGTCAATGTAGCTTGCTTTCATCCTTTACCTGGAGGAGGTCTTG
upper sequence: GLYMA03G32620.4 (Glycine max), 3'ss of exon 11
lower sequence: PP1S150_95V6.1 (Physcomitrella patens), 3'ss of exon 11
---------------------------------------------------------gctggcacaaattgttgccattcatatca--tctatgccctttttgtagt---tcaaatggttttaatctgaatttaatgtctatgaatttgctttgtcttt-tagGTATACAAAGTGTCAGATATGGAACTTGTTAGGGTGCTTCCTAGTGCAGAAGACGAGGTCAATGTGGCATGCTTTCATCCTTTTGCTGGGGGAGGACTAG
|| | ||| | | | | | ||| ||||| | | | | | | || | ||||| | | || || | | | | ||| || |||| |||| ||| ||||||||||| ||||| ||||| | |||||||| ||||| ||||| |||||||| ||||||||||| | ||| || || || |
gtttgggattcttttcattcaacccaatagtcttagtggcaagtaactacttgtgtaacttttaaaaaatttgacagtgaacgtcagttctatattcctgcttgattcagttaagtaattttacttggg--ccaaccactgtctctctcttgtgttttaacagGTTTACAGAGTTTCAGATATGGAGCTTGTGAGGGTATTACCTAGTGCTGAAGATGAGGTGAATGTGGCGTGCTTTCATCCCCAAGTTGGTGGTGGTCTTG
upper sequence: GLYMA03G32620.4 (Glycine max), 3'ss of exon 11
lower sequence: PP1S58_234V6.1 (Physcomitrella patens), 3'ss of exon 12
---------------------------------------------------------gctggcacaaattgttgcc-attcatatcatctatgccctttttgtagttcaaatggttttaat--ctgaatttaat--gtctatgaatttgctttgtctttt-----------agGTATACAAAGTGTCAGATATGGAACTTGTTAGGGTGCTTCCTAGTGCAGAAGACGAGGTCAATGTGGCATGCTTTCATCCTTTTGCTGGGGGAGGACTAG
| || || || | | || | | ||| | || | | | | | | | || || || ||| | | ||| | | | ||| |||||| ||||||||| ||| ||||||||||| ||||| || || ||||| ||||| || || || || |||||||| || |||||||| | ||| || || || |
gtttgaatatcttctctcagtcacgctcttgcaagtcgctatctgtgtccccttggttccttgacgtgtttttcctgagtcccacagtgaatggcaattctacattcctacttgcgttgataactcaatcttcctggactaagcacaggttttctctttttctgttcaatcagGTATACAGAGTTTCAGATATGGAGCTTGTGAGAGTACTTCCCAGTGCTGAGGATGAAGTGAATGTGGCGTGTTTTCATCCCCAAGTTGGTGGCGGTCTTGMapped 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|8669853|gb|BE190960.1|BE190960EST: TGCTTGCTTCACGAGCAATTAGAGCAGCTCATTGTCTGACTTCAATTCAG GTATACAAAGTGTCAGATATGGAACTTGTTAGGGTGCTTCCTAGTGCA
genomic: TGCTTGCTTCACGAGCAATTAGAGCAGCTCATTGTCTGACTTCAATTCAGgtcagttaat ... tgtcttttagGTATACAAAGTGTCAGATATGGAACTTGTTAGGGTGCTTCCTAGTGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttcaaatggttttaatctgaatttaatgtctatgaatttgctttgtcttttagGTATACAAAGTGTCAGATATGGAACTTGTTAGGGTGCTTCCTAGTGCAGAAGACGAGGTCAATGTGGCATGCTTTCATCCTTTTGCTGGGGGAGGACTAG
tttgctttgtctttt CT-rich tract
ttttaatctgaattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gctggcacaaattgttgccattcatatcatctatgccctttttgtagttcaaatggttttaatctgaatttaatgtctatgaatttgctttgtcttttagGTATACAAAGTGTCAGATATGGAACTTGTTAGGGTGCTTCCTAGTGCAGAAGACGAGGTCAATGTGGCATGCTTTCATCCTTTTGCTGGGGGAGGACTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA