Sequence
atgc intronic sequence ATGC exonic sequence...ttaagtggttaggtgatggcatgtaaaaggtttcatttcagctcttaacaattccttaaaatgaaaactgcattcatctcattgacatgttgttttgcagCTACTTAGCTCCTGAATATGCAATGACTGGCCATCTTCTGGTCAAGAGTGACGTTTATAGTTATGGAGTTGTACTCCTTGAGCTCCTAACTGGAAGAAAG
Basic information
species | Glycine max |
transcript | GLYMA07G01210.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G01210.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os01g51290.1 (Oryza sativa), 3'ss of exon 12
ttaagtggttaggtgatggcatgtaaaaggtttcatttcagctcttaacaattccttaaaatgaaaactgcattcatctcattgacatgttgttttgcagCTACTTAGCTCCTGAATATGCAATGACTGGCCATCTTCTGGTCAAGAGTGACGTTTATAGTTATGGAGTTGTACTCCTTGAGCTCCTAACTGGAAGAAAG
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--------gtaagttttgatctg---aaattattatcttactacctg-tagttggttaacatcctcaccttaaaaagattatgaactc-----tttttagGTATGTTGCTCCTGAATACGCAATGACTGGGCATCTTCTAGTAAAGAGTGATGTCTACAGCTATGGTGTCGTCCTCCTTGAGCTTCTTACCGGAAGGAAA
upper sequence: GLYMA07G01210.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G404207_T01 (Zea mays), 3'ss of exon 5
ttaagtggttaggtgatggcatgtaaaaggtttcatttcagctcttaacaattccttaaaatga--aaactgcattc---atctcattgacatgttgttttgcagCTACTTAGCTCCTGAATATGCAATGACTGGCCATCTTCTGGTCAAGAGTGACGTTTATAGTTATGGAGTTGTACTCCTTGAGCTCCTAACTGGAAGAAAG
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----------gtacgctgaatctgaacctactatctttacatttttatagatgattcaacatcaccaacttatgttccaaattttatggtcaatttttctt--agGTACGTTGCACCTGAATATGCAATGACTGGCCATCTTCTGGTAAAGAGTGATGTTTACAGCTACGGCGTAGTTCTCCTTGAGCTCCTTACAGGGATGAAA
upper sequence: GLYMA07G01210.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G330298_T01 (Zea mays), 3'ss of exon 6
ttaagtggttaggtgatggcatgtaaaaggtttcatttcagctcttaacaattc-cttaaaatgaaaactgcat-tcatctcattgacat-gttgttttgcagCTACTTAGCTCCTGAATATGCAATGACTGGCCATCTTCTGGTCAAGAGTGACGTTTATAGTTATGGAGTTGTACTCCTTGAGCTCCTAACTGGAAGAAAG
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----------gtatgctaa-atctgaaattactatctttacttcttcatagttgattcaataccatcaactcatattacaaaattctggtcaatttctcttagGTATCTTGCTCCTGAATATGCAATGACTGGCCATCTTCTAGTAAAGAGTGATGTTTACAGCTACGGTGTTGTTCTTCTTGAGCTTCTTACAGGGAGGAAA
upper sequence: GLYMA07G01210.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv09s0002g02220.t01 (Vitis vinifera), 3'ss of exon 9
-ttaagtggttaggtgatggcatgtaaaaggtttcatttcagctcttaacaattccttaaaatgaaaactgcattcatctcattgacatgttgttttgcagCTACTTAGCTCCTGAATATGCAATGACTGGCCATCTTCTGGTCAAGAGTGACGTTTATAGTTATGGAGTTGTACTCCTTGAGCTCCTAACTGGAAGAAAG
|| | | | || || | | | || || | | | | ||||| || | | | ||| || || | ||||||| ||||||||||||||| |||||||||||||||||||||||||| || || ||||| ||||| |||||||| || || || |||||||||||||| |||||||||
tatattttgcctgtggacggtagtttctttttctcgttgttttattgctttgtgcttcaaaatctcaagt-ctcttatccaataaacttcttgttttccagCTACTTAGCTCCAGAATATGCAATGACTGGCCATCTTCTCGTGAAAAGTGATGTTTACAGTTATGGTGTAGTCCTTCTTGAGCTCCTAACAGGAAGAAAG
upper sequence: GLYMA07G01210.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S95_115V6.1 (Physcomitrella patens), 3'ss of exon 7
ttaagtggttaggtgatggcatgtaaaaggtttcatttcagctct--taacaattccttaaaatgaaaactgcattcatctcattgacatgttgttttgcagCTACTTAGCTCCTGAATATGCAATGACTGGCCATCTTCTGGTCAAGAGTGACGTTTATAGTTATGGAGTTGTACTCCTTGAGCTCCTAACTGGAAGAAAG
| | | || ||| || || | || | | | || | | || ||||| | | || | | | ||||| ||| | || ||||| || |||||||| || |||||||| || ||||| |||||||| ||||||||||| ||||| ||||||||||| | ||| | ||
-ttcttttacattggaccacatctagaac-taccacattaatcagaatgtcaggacttagccttggtttctgcactgacctattggttgattcaaactgcagGTACGTTGCCCCTGAGTACGCAATGACAGGACATCTTCTTGTTAAGAGCGACGTTTACAGTTATGGAGTGGTACTTCTTGAGCTCCTCTCGGGACGGAAA
upper sequence: GLYMA07G01210.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S255_47V6.1 (Physcomitrella patens), 3'ss of exon 6
ttaagtggttaggt--gatggcatgtaaaaggtttcatttcagctcttaacaattccttaaaatgaaaactgcattcatctcattgacatgttgttttgcagCTACTTAGCTCCTGAATATGCAATGACTGGCCATCTTCTGGTCAAGAGTGACGTTTATAGTTATGGAGTTGTACTCCTTGAGCTCCTAACTGGAAGAAAG
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-tgtttctttgcaccggattacctccaaaatggc-catatttgtcactattaggatcgtgccttggtttctgcactgacaaaatattggatctaaactgcagATATGTGGCTCCTGAATACGCAATGACAGGACATTTGCTTGTGAAGAGTGACGTTTATAGTTATGGAGTGGTACTGCTCGAGCTCCTCTCGGGGCGTAAAMapped 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|14126015|gb|BG790453.1|BG790453EST: CTGGATGAGAGAAACAAGCACATCTCCACACATGTTATGGGAACATTTGG CTACTTAGCTCCTGAATATGCAATGACTGGCCATCTTCTGGTCAAGAGTGA
genomic: CTGGATGAGAGAAACAAGCACATCTCCACACATGTTATGGGAACATTTGGgtaataatcc ... tgttttgcagCTACTTAGCTCCTGAATATGCAATGACTGGCCATCTTCTGGTCAAGAGTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taacaattccttaaaatgaaaactgcattcatctcattgacatgttgttttgcagCTACTTAGCTCCTGAATATGCAATGACTGGCCATCTTCTGGTCAAGAGTGACGTTTATAGTTATGGAGTTGTACTCCTTGAGCTCCTAACTGGAAGAAAG
ttgtttt CT-rich tract
ttaaaatgaaaact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttaagtggttaggtgatggcatgtaaaaggtttcatttcagctcttaacaattccttaaaatgaaaactgcattcatctcattgacatgttgttttgcagCTACTTAGCTCCTGAATATGCAATGACTGGCCATCTTCTGGTCAAGAGTGACGTTTATAGTTATGGAGTTGTACTCCTTGAGCTCCTAACTGGAAGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- -agtggtt
- - - - - -ggtgatg
- - - - - - - - - gcatgta
- - - - - - - - - - - - - - - - - - - - - - - - caattcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aactgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgacatg