Sequence
atgc intronic sequence ATGC exonic sequenceATTTGTTGTGAGGAGGCCCCCAGAGTTTGCTAGAGATCTTCTTCCCAACTATTTCAAGCACAATAACTTCTCAAGCTTTGTTAGGCAGCTAAATACCTATgtgagaatccatctcttctatatatataactttttttgttctgatctatccttcattattgtttttgtgctacacttcttgacagagttatagcctaatc...
Basic information
species | Glycine max |
transcript | GLYMA02G44670.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G44670.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os07g44690.1 (Oryza sativa), 5'ss of exon 1
ATTTGTTGTGAGGAGGCCCCCAGAGTTTGCTAGAGATCTTCTTCCCAACTATTTCAAGCACAATAACTTCTCAAGCTTTGTTAGGCAGCTAAATACCTATgtgagaatccatctcttctatatatataactttttttgttctgatctatccttcattattgtttttgtgctacacttcttgacagagttatagcc-taatc---
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CTTCGTCGTGTGGCGGCCGCCGGAGTTCGCCCGCGACCTCCTCCCCAACTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtaagctgctgctaccattgcacattt---ttgccacatatatattgttgctctataagaatccgtaattttcatgtcg-gtcaaaaacatgacggtggttgtg
upper sequence: GLYMA02G44670.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os03g25120.1 (Oryza sativa), 5'ss of exon 1
ATTTGTTGTGAGGAGGCCCCCAGAGTTTGCTAGAGATCTTCTTCCCAACTATTTCAAGCACAATAACTTCTCAAGCTTTGTTAGGCAGCTAAATACCTATgtgagaatccatctcttctatatatataactttttttgttctgatctatccttcattattgtttttgtgctacacttcttgacagagttatagcctaatc--
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CTTCGTGGTGTGGCGGCCGCCGGAGTTCGCCAGGGACCTCCTCCCAAACTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtaagcatatatacatcatgcatgtatatatatatatata-tatgccgcaattaatttcactcattatgttata-tgcatgctgtttttttcgctagctctt
upper sequence: GLYMA02G44670.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G025685_T01 (Zea mays), 5'ss of exon 1
ATTTGTTGTGAGGAGGCCCCCAGAGTTTGCTAGAGATCTTCTTCCCAACTATTTCAAGCACAATAACTTCTCAAGCTTTGTTAGGCAGCTAAATACCTATgtgagaatccatctcttctatat-atata-actttttttgttctgatctatccttcattattgtttttgtg-ctacacttcttgacagagttatagcctaatc
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CTTCGTCGTGTGGCGCCCGCCCGAGTTCGCCCGCGACCTCCTCCCAAACTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgtagtagtattacattacatacacataatgcattgcattgcattgcattgtactgcatgcatggtttcagttcccttgctcgatcttgtttg---
upper sequence: GLYMA02G44670.1 (Glycine max), 5'ss of exon 1
lower sequence: AC216247.3_FGT001 (Zea mays), 5'ss of exon 1
ATTTGTTGTGAGGAGGCCCCCAGAGTTTGCTAGAGATCTTCTTCCCAACTATTTCAAGCACAATAACTTCTCAAGCTTTGTTAGGCAGCTAAATACCTATgtgagaatccatctcttctatatatataactttttttgttctgatctatccttcattat-tgtttttgtgctacac-ttcttgacagagttatagcctaatc
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CTTCGTGGTGTGGCGGCCGCCGGAGTTCGCCCGGGACCTCCTCCCCAGCTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTACgtgag--tgcaatatatgtatatatatatatatatatatatatatatatatatatatatatattaattagcggcgcatgcatgctgaggttatgatcgagtg
upper sequence: GLYMA02G44670.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv06s0009g02730.t01 (Vitis vinifera), 5'ss of exon 1
ATTTGTTGTGAGGAGGCCCCCAGAGTTTGCTAGAGATCTTCTTCCCAACTATTTCAAGCACAATAACTTCTCAAGCTTTGTTAGGCAGCTAAATACCTATgtgagaatccatctctt-ctatatatataactttttttgttctgatctatccttcattattgttttt-gtgctacacttcttgacagagttatagcctaatc
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CTTTGTTGTTTGGAGACCCCCTGAGTTTGCCAGGGATCTCCTCCCCAACTACTTCAAGCACAACAACTTCTCCAGCTTTGTTAGGCAGCTCAATACCTATgtgagagtgcatcattaaccctctctctctctctctctctctctctctctctctctctcctgattcaagcactgtgtttcattttcacttcattgggggt--
upper sequence: GLYMA02G44670.1 (Glycine max), 5'ss of exon 1
lower sequence: PP1S12_41V6.1 (Physcomitrella patens), 5'ss of exon 1
ATTTGTTGTGAGGAGGCCCCCAGAGTTTGCTAGAGATCTTCTTCCCAACTATTTCAAGCACAATAACTTCTCAAGCTTTGTTAGGCAGCTAAATACCTATgtgagaatccatctcttctatatatataactttttttgttc--tgatctatccttcattattgtttt--tgtgctacacttcttgacagagttatagcctaatc
||| || || || | || || || || ||| |||||||| | ||||| || |||||||||||||||||||| ||||| || | ||||| ||||||||||| || | ||| | | |||| | || || ||| | | || ||| || || | | || || | || | || | |
ATTCGTCGTCTGGCGTCCTCCTGAATTCGCTCGAGATCTTTTGCCCAAATACTTCAAGCACAATAACTTCTCTAGCTTCGTACGACAGCTGAATACCTATgtaag---ctccgcattccgttt-cgcaactgtgttgattgcgtgaaatttgattaattgccgtccaaatgagtaatacatcaggttagtcaaagagaatgaat
upper sequence: GLYMA02G44670.1 (Glycine max), 5'ss of exon 1
lower sequence: PP1S19_153V6.1 (Physcomitrella patens), 5'ss of exon 1
ATTTGTTGTGAGGAGGCCCCCAGAGTTTGCTAGAGATCTTCTTCCCAACTATTTCAAGCACAATAACTTCTCAAGCTTTGTTAGGCAGCTAAATACCTATgtgagaatccatctcttctatatatataactttttttgttctgatctatccttcattattgtttttgtgctacacttcttgacagagttatagcctaatc-------
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CTTCGTCGTTTGGCGCCCTCCTGAGTTTGCGAGAGATCTCTTACCCAACTATTTCAAACACAACAACTTTTCCAGCTTTGTGCGACAACTAAATACTTATgtaagc-tccgcattttacacaaatatga---tgataattcagatggagcgttc--tcacatagctaagtagcgtttca-gtgagaagtgcgattcactcgaggaag
upper sequence: GLYMA02G44670.1 (Glycine max), 5'ss of exon 1
lower sequence: PP1S207_20V6.1 (Physcomitrella patens), 5'ss of exon 1
ATTTGTTGTGAGGAGGCCCCCAGAGTTTGCTAGAGATCTTCTTCCCAACTATTTCAAGCACAATAACTTCTCAAGCTTTGTTAGGCAGCTAAATACCTATgtgag--aatccatctcttctatatatataactttttttgttctgatctatccttcattattgtttttgtgctacactt--cttgacagagttatagcctaatc
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CTTCGTGGTCTGGCGACCGCCAGAGTTTGCACGGGACTTGCTTCCTAATTACTTCAAGCACAATAATTTCTCCAGCTTTGTTAGGCAGCTCAACACCTACgtaagtcgatccacttaagggacgt-tgtaaaatatcaggat--gatcgagatttgagaaaggtgaaatttgaaaactaggctcgagaagacaccagggttgg-Mapped 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|192323195|gb|FK015261.1|FK015261EST: ATTTCAAGCACAATAACTTCTCAAGCTTTGTTAGGCAGCTAAATACCTAT GGATTCAAGAAGGTAGCTGCTGATAGGTGGGAGTTTGCAAATGAATACTTC
genomic: ATTTCAAGCACAATAACTTCTCAAGCTTTGTTAGGCAGCTAAATACCTATgtgagaatcc ... tttttctcagGGATTCAAGAAGGTAGCTGCTGATAGGTGGGAGTTTGCAAATGAATACTTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTTGTTGTGAGGAGGCCCCCAGAGTTTGCTAGAGATCTTCTTCCCAACTATTTCAAGCACAATAACTTCTCAAGCTTTGTTAGGCAGCTAAATACCTATgtgagaatccatctcttctatatatataactttttttgttctgatctatccttcattattgtttttgtgctacacttcttgacagagttatagcctaatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccatctct