Sequence
atgc intronic sequence ATGC exonic sequenceCATTCTTGGTGTCAATCTTGGAAAGAACAAGACAAGTGAAGATGCTGCAGCAGATTATGTTCAAGGAGTTCATACATTGTCCCAATATGCTGATTACCTGgtaattagtcttttcttatgtatgccttttatagaaaaagaagggaaagatagacaaccttgtatactgtaacttatcttggtatgactgagtgcagatt...
Basic information
species | Glycine max |
transcript | GLYMA10G43220.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G43220.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os04g57950.1 (Oryza sativa), 5'ss of exon 4
CATTCTTGGTGTCAATCTTGGAAAGAACAAGACAAGTGAAGATGCTGCAGCAGATTATGTTCAAGGAGTTCATACATTGTCCCAATATGCTGATTACCTGgtaattagtcttttcttatgtatgccttttatagaaaaagaagggaaagatagacaaccttgtatactgtaacttatcttggtatgactgagtgcagatt--
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AATCTTGGGAGTCAATCTTGGGAAGAACAAGATCAGCGAAGATGCTACTGCTGACTACGTGCAAGGAGTTCATACACTATCACAATATGCTGATTACTTGgtattcatcctcttctcttcaagaaaacctcacatggatgtgtttctacttgaac--ctaagcataccatttgttcacattgattggttcacactagttttg
upper sequence: GLYMA10G43220.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G043776_T01 (Zea mays), 5'ss of exon 4
CATTCTTGGTGTCAATCTTGGAAAGAACAAGACAAGTGAAGATGCTGCAGCAGATTATGTTCAAGGAGTTCATACATTGTCCCAATATGCTGATTACCTGgtaattagtcttttcttatgtatgccttttatagaaaaagaagggaaagatagacaaccttgtatactgtaacttatcttggtatgactgagtgcagatt---------
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AATCTTGGGAGTCAATCTTGGCAAGAACAAGACTAGTGAAGATGCTGCTGCTGATTATGTGCAAGGGGTTCATACATTGTCACAATATGCTGATTACTTGgtacctgtcctttgc--acacagtaattttacactataattttggta---tttccggtttcatat----tagctgtttttagaaccagaaatttcgcatttatttattt
upper sequence: GLYMA10G43220.1 (Glycine max), 5'ss of exon 4
lower sequence: AT5G23300.1 (Arabidopsis thaliana), 5'ss of exon 4
CATTCTTGGTGTCAATCTTGGAAAGAACAAGACAAGTGAAGATGCTGCAGCAGATTATGTTCAAGGAGTTCATACATTGTCCCAATATGCTGATTACCTGgtaattagtcttttcttatgtatgccttttatagaaaaagaagggaaagatagacaaccttgtatactgtaacttatcttggtatgactgagtgcagatt
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TATTCTTGGGGTCAACCTTGGAAAGAACAAGACGAGTGAGGATGCTGCTGCTGACTATGTCCAAGGAGTTCATAACTTATCCCAGTATGCTGATTACTTGgta-caaacttcttaccatga------tatatcgaacatgaatttgatctaatccaccgtagaattctttgttcctaattttcatttttctcttcag---
upper sequence: GLYMA10G43220.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv10s0042g00140.t01 (Vitis vinifera), 5'ss of exon 4
CATTCTTGGTGTCAATCTTGGAAAGAACAAGACAAGTGAAGATGCTGCAGCAGATTATGTTCAAGGAGTTCATACATTGTCCCAATATGCTGATTACCTGgtaattagtcttttcttatgta-tgccttttatagaaaaagaagggaaag---atagacaaccttgtatactgtaacttatcttggtatgactgagtgcagatt
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CATTCTTGGGGTCAACCTTGGAAAGAATAAGACAAGTGAAGATGCTGCTGCAGATTATGTACAAGGGGTTCATTCATTATCCCAGTATGCTGATTACTTGgtagaaattttttctttcttcagtacactttaatgttagtcttaggatttcctgcaggcaacaaag-atagtggacttcagttctttgattttggacatgg---
upper sequence: GLYMA10G43220.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S29_152V6.1 (Physcomitrella patens), 5'ss of exon 5
CATTCTTGGTGTCAATCTTGGAAAGAACAAGACAAGTGAAGATGCTGCAGCAGATTATGTTCAAGGAGTTCATACATTGTCCCAATATGCTGATTACCTGgtaattagtcttt------------tcttatgtatgccttttatagaaaaagaagggaaagat-agacaaccttgtatactgtaact----tatcttggtatgactgagtgcagatt------------------------------------------------------------------------------------
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GATATTAGGTGTAAATCTTGGAAAGAATAAGACGAGTGAAGATGCCGCAGCTGATTATGTACAAGGCGTGCATACCTTGTCTCAATATGCTGATTACCTGgtaagctattgtcgagccactaacctgcgatgttgattttttatgtcgatacatctcagagcttggatttttttattccccgtaggtgcagtaccctggtacg-ttacgtataaggtaagttgcttgtatccagaataatgagtacaggtcattacaaatcaagccattgatggtacagacgtggtggaaattttttgcag
upper sequence: GLYMA10G43220.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S291_29V6.1 (Physcomitrella patens), 5'ss of exon 4
CATTCTTGGTGTCAATCTTGGAAAGAACAAGACAAGTGAAGATGCTGCAGCAGATTATGTTCAAGGAGTTCATACATTGTCCCAATATGCTGATTACCTGgtaa--ttagtct----------tttcttatgtatgccttttatagaaaaagaagggaaagatagacaaccttgtatactgtaacttatcttggtatgactgagtgcagatt-------------------------------------------------------------------------
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GATAGTAGGAGTAAATCTGGGAAAGAATAAGACCAGTGAAGATGCTGCAGCTGATTATGTACAAGGGGTTCATACCTTGTCACAATATGCTGATTATTTGgtaagattatgctgaatcacaagcctgtcatgttggattttcaccttaacaaacctctgagaagctgcattctat-tataatagttttattgtgtatgacaagatgaatattttaagaagaaagagttcaggtcatcacaaatttaagatactgattgtgcatatcctgtggagattgcttgcagMapped 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|298167481|gb|HO012744.1|HO012744EST: CAGATTATGTTCAAGGAGTTCATACATTGTCCCAATATGCTGATTACCTG GTGATTAATGTTTCATCACCCAATACCCCTGGTTTGCGCATGCTTCAAGGA
genomic: CAGATTATGTTCAAGGAGTTCATACATTGTCCCAATATGCTGATTACCTGgtaattagtc ... ccttttctagGTGATTAATGTTTCATCACCCAATACCCCTGGTTTGCGCATGCTTCAAGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CATTCTTGGTGTCAATCTTGGAAAGAACAAGACAAGTGAAGATGCTGCAGCAGATTATGTTCAAGGAGTTCATACATTGTCCCAATATGCTGATTACCTGgtaattagtcttttcttatgtatgccttttatagaaaaagaagggaaagatagacaaccttgtatactgtaacttatcttggtatgactgagtgcagatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaagaa